TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 3MG1_ECOLI P05100 DNA-3-methyladenine glycosylase 1 (3.2.2.20) (DNA-3-methyladenine glycosylase I) (3-methyladenine-DNA glycosylase I, constitutive) (TAG I) (DNA-3-methyladenine glycosidase I) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.3, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 8/16 (50%) Frame = -3 Query: 47 ITVLKKRENYRACFHQ 62 + +L R C+HQ Sbjct: 5192 LNLLNLTSRQRVCYHQ 5145 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +2 Query: 165 FMQACGLVNDH 175 + Q C NDH Sbjct: 3707 YHQGCRWRNDH 3739 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = -2 Query: 176 VVGCCCYPGN 185 + CCC P + Sbjct: 1053 IFSCCCKPSD 1024 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 3MG2_ECOLI P04395 DNA-3-methyladenine glycosylase 2 (3.2.2.21) (DNA-3-methyladenine glycosylase II) (3-methyladenine-DNA glycosylase II, inducible) (TAG II) (DNA-3-methyladenine glycosidase II) (282 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 13/26 (50%) Frame = -1 Query: 253 IRRYAERWKPWRSYALLHIWYTEGWQ 278 +RR+ + W ++ H TEG + Sbjct: 4081 LRRF*RNFTCWHNHFTDHFPTTEGLE 4004 Score = 15.8 bits (29), Expect = 9.6, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 1/28 (3%) Frame = -2 Query: 249 TPAQIRRYAER-WKPWRSYALLHIWYTE 275 T +R A R W+ R+Y L+ W T+ Sbjct: 2853 TSLSLRNIAARFWR--RAYFLIFSWLTQ 2776 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 153 ICFPTPQR 160 ICF P+R Sbjct: 6516 ICFTRPRR 6539 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 6PGD_ECOLI P00350 6-phosphogluconate dehydrogenase, decarboxylating (1.1.1.44) (468 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 6PGL_ECOLI P52697 6-phosphogluconolactonase (6-P-gluconolactonase) (Pgl) (3.1.1.31) (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = -3 Query: 183 FHPNEQYAYCV 193 +HP ++Y Y + Sbjct: 4706 YHPTKRYQYVL 4674 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AAEA_ECOLI P46482 p-hydroxybenzoic acid efflux pump subunit aaeA (pHBA efflux pump protein A) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -1 Query: 208 GYRAEIT 214 GYRAEI Sbjct: 6916 GYRAEIV 6896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AAEB_ECOLI P46481 p-hydroxybenzoic acid efflux pump subunit aaeB (pHBA efflux pump protein B) (655 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/11 (81%), Positives = 9/11 (81%), Gaps = 1/11 (9%) Frame = -1 Query: 252 SC-ETYLIQNT 261 SC TYLIQNT Sbjct: 4444 SCFRTYLIQNT 4412 Score = 17.7 bits (34), Expect = 7.4, Method: Compositional matrix adjust. Identities = 7/30 (23%), Positives = 16/30 (53%) Frame = +2 Query: 148 ERCSEIVIGIVCAIMADLLFSPRSIKQEVD 177 E C+ +++ + + +L + P S E+D Sbjct: 4970 EECATVLVEAEFSSLEELAYVPESELPEID 5059 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AAER_ECOLI P67662 HTH-type transcriptional activator aaeR (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%), Gaps = 3/19 (15%) Frame = -3 Query: 71 RMLHEVQDV---HEQLYAF 86 R LH+ QDV ++ LY F Sbjct: 4979 RTLHQFQDVR*TYQSLYGF 4923 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 65 YYQGCR 70 Y+QGCR Sbjct: 3707 YHQGCR 3724 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AAEX_ECOLI P46478 Protein aaeX (67 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.72, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%) Frame = -3 Query: 51 NTALYCCLFYLISRLF 66 T+ YC L LI RLF Sbjct: 5345 QTSRYCGLP*LIYRLF 5298 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AAS_ECOLI P31119 Bifunctional protein aas (2-acylglycerophosphoethanolamine acyltransferase) (2.3.1.40) (Acyl-[acyl-carrier-protein]--phospholipid O-acyltransferase) (2-acyl-GPE acyltransferase) (Acyl-[acyl-carrier-protein] synthetase) (6.2.1.20) (Long-chain-fatty-acid--[acyl-carrier-protein] ligase) (Acyl-ACP synthetase) (719 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AAT_ECOLI P00509 Aspartate aminotransferase (AspAT) (2.6.1.1) (Transaminase A) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -3 Query: 149 YYDAENHTLDFDA 161 YY +NH L D+ Sbjct: 1436 YYGCQNHPLATDS 1398 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ABDH_ECOLI P77674 Gamma-aminobutyraldehyde dehydrogenase (1.2.1.19) (1-pyrroline dehydrogenase) (4-aminobutanal dehydrogenase) (ABALDH) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.71, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = +2 Query: 423 ARLQYGCTWVNTH 435 AR GC W N H Sbjct: 3701 ARYHQGCRWRNDH 3739 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 12/50 (24%), Positives = 23/50 (46%) Frame = +2 Query: 298 EKLGAAVATLKSGAPDDESTELGPLSSLAHLERVGKAVEEAKATGHIKVI 347 + LGA LKSG+ + + G SS+ + G + + + + V+ Sbjct: 1358 DALGAQDPKLKSGSYQLQVGDFGNRSSVQFTDSKGHTLNQQQNDALVAVL 1507 Score = 17.7 bits (34), Expect = 5.3, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = -1 Query: 425 LQYGCTWVNTHFMLVSEMPHGG 446 L YG V + + +PHGG Sbjct: 5938 LSYGALLVLQNVSVQPLLPHGG 5873 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ABGA_ECOLI P77357 Aminobenzoyl-glutamate utilization protein A (436 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -3 Query: 82 GALAQWIAAFEGGFT 96 ALA W+A+ G T Sbjct: 6824 AALACWMASIVCGMT 6780 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ABGB_ECOLI P76052 Aminobenzoyl-glutamate utilization protein B (481 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ABGR_ECOLI P77744 HTH-type transcriptional regulator abgR (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ABGT_ECOLI P46133 Aminobenzoyl-glutamate transport protein (508 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.075 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.075, Method: Compositional matrix adjust. Identities = 11/43 (25%), Positives = 21/43 (48%) Frame = +1 Query: 300 FIKGIVPLIILFFFVVSLAYGIATRTIRRQADLPHLMIEPMKE 342 F+ + ++ FF+VSL G + RQ+ + +P K+ Sbjct: 2668 FMTRMTAILATLFFIVSLVLGNMSSKQHRQSSEWENLSQPAKD 2796 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +3 Query: 203 NPQMHVSVIDNWYFMAS 219 NPQ H +W F A+ Sbjct: 54 NPQYHRVKRSHWKFRAA 104 Score = 17.3 bits (33), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -1 Query: 450 FVPLFLGFLQR 460 +VPLFL L++ Sbjct: 2467 YVPLFLASLKK 2435 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ABRB_ECOLI P75747 Protein abrB (AidB regulator) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -1 Query: 165 NAEAVNQHI 173 NAE NQH Sbjct: 4504 NAEKFNQHF 4478 Score = 16.2 bits (30), Expect = 10.0, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 14/32 (43%) Frame = -1 Query: 5 QWGMLCVLSLLLSIGFLAVHLPAALLLGPMIA 36 +WG L +LLS + +++ P A Sbjct: 3811 KWGARFALRILLSANTSSFPSTVTMIISPSTA 3716 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACCA_ECOLI P0ABD5 Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha (Acetyl-CoA carboxylase carboxyltransferase subunit alpha) (ACCase subunit alpha) (6.4.1.2) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.24 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.24, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 9/9 (100%) Frame = +1 Query: 157 IITFIDTPG 165 ++TF+DTPG Sbjct: 6673 MVTFLDTPG 6699 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACCC_ECOLI P24182 Biotin carboxylase (6.3.4.14) (Acetyl-CoA carboxylase subunit A) (ACC) (6.4.1.2) (449 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 8/11 (72%) Frame = -3 Query: 240 VEEAPAPGITP 250 VEEAPAP P Sbjct: 2639 VEEAPAPNEAP 2607 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACCD_ECOLI P0A9Q5 Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta (Acetyl-CoA carboxylase carboxyltransferase subunit beta) (ACCase subunit beta) (6.4.1.2) (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = +1 Query: 20 PEGVWTKCDS 29 PEG W K S Sbjct: 3112 PEGRWFKSGS 3141 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACEA_ECOLI P0A9G6 Isocitrate lyase (ICL) (Isocitratase) (Isocitrase) (4.1.3.1) (434 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = -3 Query: 363 FDLANAYAQGEGMKHYVEKVQQPE 386 F + + EG+ H +QQPE Sbjct: 3923 FLMLQKSSHVEGISH*KRLLQQPE 3852 Score = 16.5 bits (31), Expect = 9.5, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 345 YKFQFITLAGIH 356 Y+FQF+ + H Sbjct: 5644 YEFQFVPIYFFH 5609 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACEK_ECOLI P11071 Isocitrate dehydrogenase kinase/phosphatase (IDH kinase/phosphatase) (IDHK/P) (2.7.11.5) (3.1.3.-) (578 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.32, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = +1 Query: 520 HWLCADPRIGPLFEEMHADLF 540 H+LC DP IG + M+ L Sbjct: 2476 HFLCGDP-IGRIGTTMYVTLL 2535 Score = 18.5 bits (36), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +1 Query: 144 HPDHGWESLL 153 H DHG SLL Sbjct: 6553 HVDHGKTSLL 6582 Score = 17.7 bits (34), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -3 Query: 132 FRTIPRPLAKDFHPDHG 148 +R + LA HP+HG Sbjct: 1397 YRILI*DLAHLMHPNHG 1347 Score = 17.3 bits (33), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +3 Query: 198 NELFYRNKAAWLV 210 N Y NK WL+ Sbjct: 1023 NHWVYNNKKKWLL 1061 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACFD_ECOLI Q46837 Putative lipoprotein acfD homolog (Precursor) (1520 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.86, Method: Composition-based stats. Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 3/49 (6%) Frame = -2 Query: 1117 TGREKHEVALNRPPRVTKTYSLDASGTVKFKVPY---GGLIYIKGNSST 1162 T K ++++ R+ + ASG + +K+P G ++ +G+ S+ Sbjct: 4509 TSMRKSSISISGRERLINNWGPRASGRISYKIPLMRSPGRMFSRGSISS 4363 Score = 21.2 bits (43), Expect = 1.4, Method: Composition-based stats. Identities = 21/91 (23%), Positives = 37/91 (40%) Frame = +1 Query: 356 STTGQNNTRVVPDDVRKVFAEYPNVINEIINLSLSNGATLGEGEQVVNLPNEFIEQFNTG 415 S+ G++ + + ++ + PN E+ N + + EQV P + EQ + Sbjct: 5602 SSGGKSKSVQIEIRRKRTYINTPNA--ELANTEKAKTEQAKQVEQVEKKPAKAEEQAKSE 5775 Query: 416 QAKEIDTAICAKTDGCNEARWFSLTTRNVND 446 AKE + A T LTT+ +D Sbjct: 5776 SAKEANAKKIADTKSKPIVEKKKLTTQQQSD 5868 Score = 21.2 bits (43), Expect = 1.6, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 24/53 (45%) Frame = +3 Query: 824 LEDVDGKQETRYAFIDEADHKTEDSLKAAKEKIFAAFPGLKECTNPAYHYEVN 876 +E + G+Q T +ID D T D ++ A + T P Y+ EV+ Sbjct: 3438 VEFIPGRQSTLRIYIDNCDGVTVDMCADVSYQVSAVLDVEEPITCP-YNLEVS 3593 Score = 19.2 bits (38), Expect = 5.7, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 1/21 (4%) Frame = -3 Query: 634 YFKRHGQVTGNSA-AFDFHPD 653 + R G + N AFD HPD Sbjct: 956 HLHRLGSILSNR**AFDLHPD 894 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACKA_ECOLI P0A6A3 Acetate kinase (2.7.2.1) (Acetokinase) (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -2 Query: 360 RNLAARFGKSGFI 372 RN+AARF + + Sbjct: 2838 RNIAARFWRRAYF 2800 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACON1_ECOLI P25516 Aconitate hydratase 1 (Aconitase 1) (4.2.1.3) (Citrate hydro-lyase 1) (891 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 7.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +2 Query: 772 YGSGSSRDWAAKG 784 Y +SRDW A G Sbjct: 1331 YSPINSRDWDALG 1369 Score = 17.7 bits (34), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +2 Query: 293 DSLPLADR 300 +SLP+ADR Sbjct: 872 ESLPIADR 895 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACON2_ECOLI P36683 Aconitate hydratase 2 (Aconitase) (4.2.1.3) (Citrate hydro-lyase) (865 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACPH_ECOLI P21515 Acyl carrier protein phosphodiesterase (ACP phosphodiesterase) (3.1.4.14) (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 12/39 (30%), Positives = 15/39 (38%) Frame = -2 Query: 127 LWSEQWLVRYRDMDFIQNVLNGMASRRPRLDALRDSWYD 165 LW W + F+ N NG LD L W+D Sbjct: 6882 LWISVWFIY-----FVDNNDNGDFRCFSMLDGLDRLWHD 6781 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACPS_ECOLI P24224 Holo-[acyl-carrier-protein] synthase (Holo-ACP synthase) (2.7.8.7) (4'-phosphopantetheinyl transferase acpS) (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.4, Method: Composition-based stats. Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 2/33 (6%) Frame = -1 Query: 68 IRNGLAFNQFEVFNDELGKPRLRL--WGEALKL 98 IRNG +Q + +L PRL WG L Sbjct: 3880 IRNGFYNSQNLFVHPKL--PRLNF*KWGARFAL 3788 Score = 15.0 bits (27), Expect = 6.7, Method: Composition-based stats. Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 2/44 (4%) Frame = +2 Query: 53 RFAVKEAAAKAFGTGIRNGLAFNQFEVFNDELGKPRLR--LWGE 94 + AVK + G G+ + + ++ELG R+ LW + Sbjct: 4574 KIAVKTNDKRIDPIGACVGMRGARVQAVSNELGGERIDIVLWDD 4705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACPT_ECOLI P37623 4'-phosphopantetheinyl transferase acpT (2.7.8.-) (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 13/25 (52%) Frame = +2 Query: 166 CQLENLSLAICTPTPFTLTADSVQW 190 Q E+L +A TLT D ++W Sbjct: 863 MQNESLPIADRQDANQTLTTDWIKW 937 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +2 Query: 51 IIYGEQGKPAFAPEMPLW 68 I+Y ++GK F P+W Sbjct: 173 ILYKKEGKGLFQ*R-PMW 223 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACP_ECOLI P0A6A8 Acyl carrier protein (ACP) (Cytosolic-activating factor) (CAF) (Fatty acid synthase acyl carrier protein) (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACRA_ECOLI P0AE06 Acriflavine resistance protein A (Precursor) (397 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.53, Method: Compositional matrix adjust. Identities = 12/22 (54%), Positives = 13/22 (59%) Frame = +1 Query: 320 DATVLVVGADDKVETRPIVASQ 341 D VLVV ADD V + I A Q Sbjct: 6745 DIVVLVVAADDGVMPQTIEAIQ 6810 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACRB_ECOLI P31224 Acriflavine resistance protein B (1049 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 12/18 (66%) Frame = +2 Query: 269 ELGGENYDIIAEFNGQPA 286 ELGGE DI+ ++ PA Sbjct: 4664 ELGGERIDIVL-WDDNPA 4714 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACRD_ECOLI P24177 Probable aminoglycoside efflux pump (Acriflavine resistance protein D) (1037 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = -1 Query: 1015 AIYFVPLFFVLVRR 1028 A+Y+VPLF +++ Sbjct: 2476 ALYYVPLFLASLKK 2435 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACRE_ECOLI P24180 Acriflavine resistance protein E (Protein envC) (Precursor) (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/14 (64%), Positives = 10/14 (71%) Frame = +1 Query: 9 LLPSFILISAALIA 22 LL F+LIS LIA Sbjct: 2530 LLVFFLLISIGLIA 2571 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACRF_ECOLI P24181 Acriflavine resistance protein F (Protein envD) (1034 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.7, Method: Composition-based stats. Identities = 10/23 (43%), Positives = 11/23 (47%) Frame = +3 Query: 636 RNGDENSAEAVIHRAKMELGKIR 658 RNG E S+ HR K K R Sbjct: 30 RNGGEISSNPQYHRVKRSHWKFR 98 Score = 19.2 bits (38), Expect = 4.5, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 11/14 (78%) Frame = +3 Query: 737 ALGVSLSDINQTIS 750 ALGVSLS + Q ++ Sbjct: 3348 ALGVSLSTLEQKLT 3389 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACRR_ECOLI P0ACS9 HTH-type transcriptional regulator acrR (Potential acrAB operon repressor) (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 12 TRQHIL 17 TRQHIL Sbjct: 4381 TRQHIL 4364 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACSA_ECOLI P27550 Acetyl-coenzyme A synthetase (6.2.1.1) (Acetate--CoA ligase) (Acyl-activating enzyme) (652 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.3, Method: Compositional matrix adjust. Identities = 5/19 (26%), Positives = 13/19 (68%) Frame = -2 Query: 217 VVVLKRTGGKIDWQEGRDL 235 ++++++ ++W GRDL Sbjct: 3048 LIIIQKQAISMNWYRGRDL 2992 Score = 19.2 bits (38), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = -3 Query: 555 KGQAIYAYVTLNHGEEPSPE 574 + +I++ V L+H +PS E Sbjct: 2243 RSLSIFSNVFLSHKRQPSGE 2184 Score = 17.7 bits (34), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -1 Query: 441 FFGVQPALVDN 451 F+G QPAL+ + Sbjct: 6214 FYGQQPALLHD 6182 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACTP_ECOLI P32705 Cation/acetate symporter actP (Acetate transporter actP) (Acetate permease) (549 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 10/22 (45%) Frame = -2 Query: 502 FSITVAFLGIWFFSATDNSAEG 523 F ++ +WF DN+ G Sbjct: 6897 FCSKTLWISVWFIYFVDNNDNG 6832 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ACYP_ECOLI P0AB65 Acylphosphatase (3.6.1.7) (Acylphosphate phosphohydrolase) (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.8, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 5/8 (62%) Frame = -3 Query: 60 QWLKSGGP 67 QW SG P Sbjct: 791 QWTLSGNP 768 Score = 15.4 bits (28), Expect = 3.9, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 28 KRLGLT 33 KRLG+T Sbjct: 1912 KRLGIT 1929 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADA_ECOLI P06134 Regulatory protein ada (Regulatory protein of adaptative response) (Methylated-DNA--protein-cysteine methyltransferase) (2.1.1.63) (O-6-methylguanine-DNA alkyltransferase) (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.14, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 16/28 (57%) Frame = +1 Query: 270 AFQQQVWQALRTIPCGETVSYQQLANAI 297 +F + V R + GETV+ +LAN + Sbjct: 6244 SFNKPVAVVNRDVIIGETVTVAELANKM 6327 Score = 21.9 bits (45), Expect = 0.19, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 15/26 (57%) Frame = -1 Query: 206 SERGICAILLGDDDATLISELQQMFP 231 SER IC + +GD +A ++ + P Sbjct: 919 SERLICILTIGDGEALVLHHCGNL*P 842 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 213 ILLGDDDATLISELQQ 228 ILL DDAT +Q+ Sbjct: 139 ILLSGDDATGFDFIQK 186 Score = 16.9 bits (32), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 2 KKATCLTDDQ 11 KKA C+T D Sbjct: 631 KKAQCITGDN 660 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADD_ECOLI P22333 Adenosine deaminase (3.5.4.4) (Adenosine aminohydrolase) (333 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.91, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 7/33 (21%) Frame = +1 Query: 251 QTSTVAELA-------AHPLKTFLEHGIRASIN 276 +T TVAELA + +KT ++ G A+IN Sbjct: 6292 ETVTVAELANKMAVKGSQVIKTMMKLGGMATIN 6390 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = +1 Query: 140 MSRTFGEAACQQELEAFLAH 159 + ++ + QQE E LAH Sbjct: 5467 LKKSETSSVTQQEKEILLAH 5526 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADEC_ECOLI P31441 Adenine deaminase (Adenase) (Adenine aminase) (3.5.4.2) (588 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -2 Query: 148 QVSSCVPALEGCDVNGAS 165 ++S+C+P CD S Sbjct: 738 RMSNCLPTAPCCDTCAIS 685 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADH2_ECOLI P37686 Probable alcohol dehydrogenase (1.1.1.1) (383 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 10/17 (58%) Frame = -2 Query: 362 CGFTNPIQATHEEIVAI 378 CG T ++ H E++ + Sbjct: 1809 CGDTRSFKSVHNEMIKL 1759 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADHE_ECOLI P0A9Q7 Aldehyde-alcohol dehydrogenase (Alcohol dehydrogenase) (ADH) (1.1.1.1) (Acetaldehyde dehydrogenase [acetylating]) (ACDH) (1.2.1.10) (Pyruvate-formate-lyase deactivase) (PFL deactivase) (891 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.18, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 15/25 (60%) Frame = -1 Query: 812 PKSIREAGVQEADFLANVDKLSEDA 836 PK+ A + +F +NVDKL+ A Sbjct: 3421 PKAFTGAEIISVNFCSNVDKLTPKA 3347 Score = 20.0 bits (40), Expect = 2.2, Method: Composition-based stats. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 329 SEPFAHEKLSPTLA 342 S P + KLSPTL Sbjct: 158 SSPLSRIKLSPTLG 117 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADHP_ECOLI P39451 Alcohol dehydrogenase, propanol-preferring (1.1.1.1) (336 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 8/17 (47%) Frame = -1 Query: 19 LRSLKHGEALLKMECCG 35 LRSL L + CC Sbjct: 5425 LRSLLPATLWLHLSCCS 5375 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADIA_ECOLI P28629 Biodegradative arginine decarboxylase (ADC) (4.1.1.19) (755 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.082 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.082, Method: Compositional matrix adjust. Identities = 12/44 (27%), Positives = 25/44 (56%) Frame = +1 Query: 362 DHYAMRGEPGDHNGPTVFATHSTHKLLNALSQASYIHVREGRGA 405 +H+ + G+P G T++ T LL ++ + I +++G+GA Sbjct: 2473 EHF-LCGDPIGRIGTTMYVTLLVFFLLISIGLIALIVLQQGKGA 2601 Score = 19.6 bits (39), Expect = 2.2, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 11/22 (50%) Frame = -1 Query: 722 RSLQSWDHHFPGFEHETEGTEI 743 R+ W +HF TEG EI Sbjct: 4066 RNFTCWHNHFTDHFPTTEGLEI 4001 Score = 18.9 bits (37), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +3 Query: 630 GIHDLGDTMFAWLK 643 GIH + + M WL+ Sbjct: 1461 GIH*INNKMMRWLR 1502 Score = 18.1 bits (35), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 13/21 (61%) Frame = +3 Query: 16 WVGNAVERLADALSQQNVTVI 36 WV N ++ +S+ N+T++ Sbjct: 1029 WVYNNKKKWLLRISRYNITIV 1091 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADIC_ECOLI P60061 Arginine/agmatine antiporter (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.92, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 17/33 (51%) Frame = -2 Query: 383 ARPAYLAVTTIAFLYCIWAVVGSGAKEVMWSFV 415 AR A TI + +W V+ S +++WS + Sbjct: 4242 ARSASRTFCTIT-CFAVWVVMRSKTTDLIWSSI 4147 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 304 AADDGLFP 311 AADDG+ P Sbjct: 6766 AADDGVMP 6789 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 20/64 (31%) Frame = -1 Query: 113 SYFFPILKDP--------------------LVLTITCVVVLWIFVLLNIVGPKMITRVQA 152 S+FF I K+P L + + + F+ LNIV K +R Sbjct: 3322 SHFFQITKNPETRGLIQLDPIRR*KNPSA*LPINVFSNQNRYQFISLNIVFEKNFSRSGC 3143 Query: 153 VATV 156 V+ + Sbjct: 3142 VSRI 3131 Score = 17.7 bits (34), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 10/20 (50%) Frame = -3 Query: 336 IFQLSSISPNATKEFGLVSS 355 +FQ P K+ GL++ Sbjct: 3380 LFQRGQTHPQGIKKKGLIAQ 3321 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADIY_ECOLI P33234 HTH-type transcriptional regulator adiY (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.18, Method: Compositional matrix adjust. Identities = 13/62 (20%), Positives = 28/62 (45%), Gaps = 5/62 (8%) Frame = +2 Query: 100 VAAQHSMMPAETESEKERTRALLFTVLSRFLDSKKFVS-----LMMYMLRNCVSDSVYQI 154 + Q M+P E +R R +L+ + + F+S +++ + R V + ++ Sbjct: 4352 IIGQEDMLPRENIRPGDRIRGILYEIRPEARGPQLFISRSRPEMLIELFRIEVPEIDEEL 4531 Query: 155 IE 156 IE Sbjct: 4532 IE 4537 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +1 Query: 143 LRNCVSDS 150 +RNC+SDS Sbjct: 3916 IRNCISDS 3939 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 14/26 (53%) Frame = +2 Query: 209 DGKNISQVSQSCGYNSTSYFISVFKD 234 +G+N+ VSQ G+ I+ K+ Sbjct: 4832 NGQNVRLVSQLSGWELNVMTINELKE 4909 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADPP_ECOLI Q93K97 ADP-ribose pyrophosphatase (3.6.1.13) (ADP-ribose diphosphatase) (Adenosine diphosphoribose pyrophosphatase) (ADPR-PPase) (ADP-ribose phosphohydrolase) (ASPPase) (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -1 Query: 145 VGEVDATTASGI 156 +GE+ ATT + I Sbjct: 1453 IGELHATTVAKI 1418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ADRA_ECOLI P0AAP1 Protein adrA (371 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 314 EGLNTLRL 321 EGLNTL + Sbjct: 1734 EGLNTLTI 1711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AEGA_ECOLI P37127 Protein aegA (659 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.27, Method: Compositional matrix adjust. Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 4/55 (7%) Frame = +3 Query: 99 FGTMQIVLTPVAAGKVKATAHK---CDLCAGRENGPAC-VENCPADALQLVTDVA 149 T++ LT + + VKA HK + GR++ ++NC + + DV+ Sbjct: 3363 LSTLEQKLTEIISAPVKALGHKLVGVEFIPGRQSTLRIYIDNCDGVTVDMCADVS 3527 Score = 18.5 bits (36), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +1 Query: 590 LESHGVTVDKWG 601 L HG+ ++WG Sbjct: 6898 LSQHGILPEEWG 6933 Score = 18.5 bits (36), Expect = 4.0, Method: Compositional matrix adjust. Identities = 12/39 (30%), Positives = 18/39 (46%) Frame = +1 Query: 157 RRLRTARQEHQPWHASTAAQEMPVMSKVEQMQATPARGE 195 RR RT A+T + +VEQ++ PA+ E Sbjct: 5641 RRKRTYINTPNAELANTEKAKTEQAKQVEQVEKKPAKAE 5757 Score = 18.1 bits (35), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = +2 Query: 599 KWGRIIADVESQYRYQTT 616 KW R DV RYQ + Sbjct: 932 KWNRADEDVPFAGRYQIS 985 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AER_ECOLI P50466 Aerotaxis receptor (506 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 13/19 (68%) Frame = +2 Query: 9 QQNTPLADDTTLMSTTDLQ 27 QQNTP++ ++ + + + Q Sbjct: 4103 QQNTPISTESEIPTYIEDQ 4159 Score = 17.7 bits (34), Expect = 5.5, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +3 Query: 259 DVSSQVSSVRNGSETL 274 DVS QVS+V + E + Sbjct: 3519 DVSYQVSAVLDVEEPI 3566 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AES_ECOLI P23872 Acetyl esterase (3.1.1.-) (EcE) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 286 LYPGTL 291 LYPGTL Sbjct: 784 LYPGTL 767 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AG43_ECOLI P39180 Antigen 43 (AG43) (Fluffing protein) (Antigen 43 alpha chain) (Antigen 43 beta chain) (Precursor) (1039 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AGAA_ECOLI P42906 Putative N-acetylgalactosamine-6-phosphate deacetylase (3.5.1.-) (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +1 Query: 39 HPAAMSLCC 47 HP +S CC Sbjct: 3592 HPQVLSACC 3618 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AGAI_ECOLI P42912 Putative galactosamine-6-phosphate isomerase (5.3.1.-) (Galactosamine-6-phosphate deaminase) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AGAL_ECOLI P06720 Alpha-galactosidase (3.2.1.22) (Melibiase) (451 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AGAR_ECOLI P0ACK2 Putative aga operon transcriptional repressor (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.42, Method: Compositional matrix adjust. Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 11/55 (20%) Frame = -3 Query: 30 GSVQVNDLSALYGVSTV-TIRNDLAFLEKQ----------GIAVRAYGGALICDS 73 GSV N +++ ++ IR +L FL GI++ +GGALI S Sbjct: 2957 GSVSTNFTTSVLKITFF*IIRANLKFLCAPIQR*VLVYH*GISLLGFGGALIFSS 2793 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AGAS_ECOLI P42907 Putative tagatose-6-phosphate ketose/aldose isomerase (5.3.1.-) (384 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -1 Query: 68 GDIIAPWLASH 78 GD++ PW H Sbjct: 6112 GDLLQPWHHFH 6080 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AGP_ECOLI P19926 Glucose-1-phosphatase (G1Pase) (3.1.3.10) (Precursor) (413 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 8/15 (53%), Gaps = 5/15 (33%) Frame = -1 Query: 129 FPGCDI-----PVHH 138 FPGCD P HH Sbjct: 6130 FPGCDYGDLLQPWHH 6086 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AHPC_ECOLI P0AE08 Alkyl hydroperoxide reductase subunit C (1.11.1.15) (Peroxiredoxin) (Thioredoxin peroxidase) (Alkyl hydroperoxide reductase protein C22) (SCRP-23) (Sulfate starvation-induced protein 8) (SSI8) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AHPF_ECOLI P35340 Alkyl hydroperoxide reductase subunit F (1.6.4.-) (Alkyl hydroperoxide reductase F52A protein) (521 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AIDB_ECOLI P33224 Protein aidB (541 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +2 Query: 407 EESELPRLYREMPVNSIWE 425 ++S LPRL P +W+ Sbjct: 1196 DDSALPRLIVRAPYAIVWQ 1252 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AIS_ECOLI P45565 Lipopolysaccharide core heptose(II)-phosphate phosphatase (3.1.3.-) (Polymyxin resistance protein pmrG) (Precursor) (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.42, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 7/34 (20%) Frame = +1 Query: 54 PVVVLFRHAER-------CDRSTNQCLSDKTGIT 80 PVV + H + C RST + GIT Sbjct: 6532 PVVTIMGHVDHGKTSLLDCIRSTKVAAGEAGGIT 6633 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AK1H_ECOLI P00561 Bifunctional aspartokinase/homoserine dehydrogenase 1 (Aspartokinase I/homoserine dehydrogenase I) (AKI-HDI) (Aspartokinase) (2.7.2.4) (Homoserine dehydrogenase) (1.1.1.3) (820 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.00 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.00, Method: Compositional matrix adjust. Identities = 10/42 (23%), Positives = 20/42 (47%) Frame = -3 Query: 366 DCVRAERAMQEEFYLELKEGLLEPLAVTERLAIISVVGDGMR 407 DC R + F+L + ++ PL + LA+ +G++ Sbjct: 1088 DCNVVSRYSK*PFFLVVVNPVISPLKQADFLAVAH*SDNGLQ 963 Score = 18.5 bits (36), Expect = 5.2, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 12/20 (60%) Frame = -1 Query: 778 LAFYSHYYQPLPLVLRGYGA 797 L FY+ QP+ +L YGA Sbjct: 5983 LPFYALLQQPVSRLLLSYGA 5924 Score = 18.5 bits (36), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -1 Query: 393 TERLAIISVVGDG 405 +ERL I +GDG Sbjct: 919 SERLICILTIGDG 881 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AK2H_ECOLI P00562 Bifunctional aspartokinase/homoserine dehydrogenase 2 (Aspartokinase II/homoserine dehydrogenase II) (AKII-HDII) (Aspartokinase) (2.7.2.4) (Homoserine dehydrogenase) (1.1.1.3) (810 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AK3_ECOLI P08660 Lysine-sensitive aspartokinase 3 (2.7.2.4) (Lysine-sensitive aspartokinase III) (Aspartate kinase III) (449 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALDA_ECOLI P25553 Lactaldehyde dehydrogenase (1.2.1.22) (Glycolaldehyde dehydrogenase) (1.2.1.21) (Aldehyde dehydrogenase A) (479 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 1/36 (2%) Frame = +3 Query: 435 TYINRENFEAMQGFHAGWRK-SGIGGADGKHGLHEY 469 TY+ EN E + W+K G K LH+Y Sbjct: 5559 TYVATENTEHFKCSELRWKK*IGTN*NS*KTNLHQY 5666 Score = 17.7 bits (34), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 435 TYINRENFEA 444 T INR+NF Sbjct: 3377 TKINRDNFST 3406 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALDB_ECOLI P37685 Aldehyde dehydrogenase B (1.2.1.-) (512 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.31, Method: Compositional matrix adjust. Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 12/70 (17%) Frame = -2 Query: 79 AHTSVQDRAAILFKIADRME------QNLELLATA------ETWDNGKPIRETSAADVPL 126 AH+S R +I IA R+ +L ++ + ET P+R + A++P Sbjct: 4980 AHSSSISRCSINISIAVRVSAWHFSLSSLIVITLSSQPLS*ETKRTF*PLRPIACAELPS 4801 Query: 127 AIDHFRYFAS 136 + F FAS Sbjct: 4800 STAMFIVFAS 4771 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +1 Query: 469 PAHAAFGGYKQSG 481 P HAAF + G Sbjct: 6694 PGHAAFTSMRARG 6732 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALF1_ECOLI P0A991 Fructose-bisphosphate aldolase class 1 (4.1.2.13) (Fructose-biphosphate aldolase class I) (FBP aldolase) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +3 Query: 29 YLPGHDYVDRVMIDN 43 ++PG R+ IDN Sbjct: 3444 FIPGRQSTLRIYIDN 3488 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALF_ECOLI P0AB71 Fructose-bisphosphate aldolase class 2 (FBP aldolase) (FBPA) (4.1.2.13) (Fructose-bisphosphate aldolase class II) (Fructose-1,6-bisphosphate aldolase) (359 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.5, Method: Compositional matrix adjust. Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 13/49 (26%) Frame = +3 Query: 141 SHMIDLSEE-SLQENIEICSKYLERM------------SKIGMTLEIEL 176 S ++D+ E + N+E+ S LER+ +I +TL I + Sbjct: 3537 SAVLDVEEPITCPYNLEVSSPGLERLLFTAEDYTDYLGERINLTLRIAM 3683 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALKB_ECOLI P05050 Alpha-ketoglutarate-dependent dioxygenase alkB (1.14.11.-) (Alkylated DNA repair protein alkB) (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.0, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 5/23 (21%) Frame = +1 Query: 129 SLHQDKD-----EPDLRAPIVSV 146 +L D+D E LRAP+V++ Sbjct: 6478 ALMSDRDMGVAGESALRAPVVTI 6546 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = +3 Query: 107 AGYPDFQPDACLIN 120 GY F CL+N Sbjct: 2598 CGYGRFIWSGCLLN 2639 Score = 16.9 bits (32), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = -3 Query: 194 AGFHPLTIDCRYNLTFRQAGKKE 216 A F+P+ + NLT K + Sbjct: 83 ASFNPMILGI*ANLTTVSGNKSQ 15 Score = 16.2 bits (30), Expect = 5.7, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = +1 Query: 111 DFQPDAC 117 +F PD C Sbjct: 2179 EFSPDGC 2199 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALKH_ECOLI P0A955 KHG/KDPG aldolase (4-hydroxy-2-oxoglutarate aldolase) (4.1.3.16) (2-keto-4-hydroxyglutarate aldolase) (KHG-aldolase) (2-dehydro-3-deoxy-phosphogluconate aldolase) (4.1.2.14) (Phospho-2-dehydro-3-deoxygluconate aldolase) (Phospho-2-keto-3-deoxygluconate aldolase) (2-keto-3-deoxy-6-phosphogluconate aldolase) (KDPG-aldolase) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 12/24 (50%) Frame = -3 Query: 152 PFSQVRFCPTGGISPANYRDYLAL 175 PF V P ISP D+LA+ Sbjct: 1055 PFFLVVVNPV--ISPLKQADFLAV 990 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALLA_ECOLI P77731 Ureidoglycolate hydrolase (3.5.3.19) (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.72, Method: Compositional matrix adjust. Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Frame = +3 Query: 57 NRAQPANLPLTIHELERH-PLGTQAFIPMKGEVFVVVVALGDDKPDLSTL 105 RA P+ P+ +++R P+G PMK V+ L + ++S L Sbjct: 870 TRASPS--PIVRMQIKRSLPIG*NGTEPMKMSPLQAVIRLVCNSKEISLL 1013 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -1 Query: 107 AFITNGEQGVNYHRNVWHHP 126 +F+T+ + HR HHP Sbjct: 2230 SFLTSFYPTSDSHRGKTHHP 2171 Score = 17.3 bits (33), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 10/17 (58%) Frame = -2 Query: 124 HHPLFAWQRVTDFLTID 140 HHP+F + ++ + D Sbjct: 6678 HHPVFGFNVISPDMLCD 6628 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALLB_ECOLI P77671 Allantoinase (3.5.2.5) (Allantoin-utilizing enzyme) (453 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 63 SEPGRSHW 70 S+P R HW Sbjct: 6267 SQPRRYHW 6290 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALLC_ECOLI P77425 Allantoate amidohydrolase (3.5.3.-) (Allantoate deiminase) (411 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 14/22 (63%) Frame = +2 Query: 200 NGQSIGVVNAIVGQRRYTVTLN 221 NGQ++ +V+ + G +T+N Sbjct: 4832 NGQNVRLVSQLSGWELNVMTIN 4897 Score = 17.7 bits (34), Expect = 4.4, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 9/24 (37%) Frame = +1 Query: 338 LTELCER---------EKLNYRVM 352 +TELC+R +LN R+M Sbjct: 235 MTELCQRVAEGKFTEAGRLNERLM 306 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 8/17 (47%) Frame = +3 Query: 116 RTVEVVAMAEEEGSRFP 132 RT+ A G RFP Sbjct: 6894 RTISARYPARRVGRRFP 6944 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 1 MITHFRQ 7 +ITH+RQ Sbjct: 5363 VITHYRQ 5343 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 95 FGALAAWLA 103 F ALA W+A Sbjct: 6827 FAALACWMA 6801 Score = 16.5 bits (31), Expect = 10.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -2 Query: 364 APRVPT 369 APR+PT Sbjct: 4641 APRIPT 4624 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALLD_ECOLI P77555 Ureidoglycolate dehydrogenase (1.1.1.154) (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +1 Query: 239 LLGLPFGRQVSSMYDDL 255 L G P GR ++MY L Sbjct: 2482 LCGDPIGRIGTTMYVTL 2532 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALLP_ECOLI P75712 Putative allantoin permease (Allantoin transport protein) (484 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.32, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 14/22 (63%) Frame = +2 Query: 436 LSLGGKFIHFMEPLSRVSWFVG 457 L LGG+F+H ++R ++ G Sbjct: 3344 LCLGGEFVHVGTKINRDNFSTG 3409 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 14/28 (50%) Frame = -1 Query: 110 LRGGIAAIMWFGLQCYAGSLACLILIGK 137 LR + A +W L C + L L +I K Sbjct: 5425 LRSLLPATLWLHLSCCSFLLQLLRIIAK 5342 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALLR_ECOLI P0ACN4 HTH-type transcriptional repressor allR (Negative regulator of allantoin and glyoxylate utilization operons) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 80 HIGLGVFNV 88 H LGV+NV Sbjct: 602 HRSLGVYNV 576 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALLS_ECOLI P0ACR0 HTH-type transcriptional activator allS (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.083 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.083, Method: Compositional matrix adjust. Identities = 8/34 (23%), Positives = 19/34 (55%) Frame = -3 Query: 216 GQKEIIVPDMETKIAAHLAGVGIGFLPKSLCQSM 249 G++++ +++ AHL +G+ + SLC + Sbjct: 404 GKRKVSAVINPSRLQAHLTAIGLASINNSLCSGI 303 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 16/59 (27%), Positives = 27/59 (45%) Frame = +2 Query: 54 RSVTLTAAGEHLLSQARDWLSWLESMPSELQQVNDGVERQVNIVINNLLYNPQAVAQLL 112 + + + AAGE L + ++ PS+ Q V V + LYN +++QLL Sbjct: 6101 KEIAVVAAGEVKLPNRKKAINS----PSQKQIVKKRGLLAVKAKESQALYNRVSISQLL 6265 Score = 16.9 bits (32), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +1 Query: 3 DPETLRT 9 DPE LRT Sbjct: 6874 DPERLRT 6894 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 13/63 (20%), Positives = 23/63 (36%) Frame = +2 Query: 13 VAETGSFSKAAERLCKTTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLLSQARDW 72 + T SK + T+ +I + +N + + R + TLT DW Sbjct: 779 IESTADISKLLLDNNRQNDTLWSQITTVMQNESLPIADRQDANQTLTT----------DW 928 Query: 73 LSW 75 + W Sbjct: 929 IKW 937 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALPA_ECOLI P33997 Prophage CP4-57 regulatory protein alpA (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALR1_ECOLI P0A6B4 Alanine racemase, biosynthetic (5.1.1.1) (359 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.21, Method: Compositional matrix adjust. Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%) Frame = +2 Query: 49 LPDADAFGVARLEEALRLRAGGITKPVLLL--EGFFDAR 85 LP+ D+F RL+E LR RA + + L E F D + Sbjct: 5045 LPEIDSFDKKRLQE-LRDRAQNVLTTLALKKEESFGDNK 5158 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -2 Query: 134 PEQAEAFYHRLTQC 147 Q FY+RLT C Sbjct: 5853 SRQFFLFYNRLTFC 5812 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = -2 Query: 73 KPVLLLEGFFDARDLPTISAQH 94 KP+ + GFF D+ +S H Sbjct: 105 KPL*ISSGFF*PDDIGDLS*SH 40 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALR2_ECOLI P29012 Alanine racemase, catabolic (5.1.1.1) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +1 Query: 348 ALRVPVVTV 356 ALR PVVT+ Sbjct: 6520 ALRAPVVTI 6546 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +2 Query: 103 NWQLKALQNAR 113 WQLKAL++ + Sbjct: 6323 KWQLKALKSLK 6355 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -2 Query: 76 ILMLEGFFHAQDL 88 I+ GF+HA+ L Sbjct: 135 IITNAGFYHAKPL 97 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALSA_ECOLI P32721 D-allose import ATP-binding protein alsA (3.6.3.17) (510 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/35 (25%), Positives = 16/35 (45%) Frame = +3 Query: 201 ISHKLAEIRRICDRYTVMKDGSSVCSGIVSDVSND 235 + HKL + I R + ++ C G+ D+ D Sbjct: 3417 LGHKLVGVEFIPGRQSTLRIYIDNCDGVTVDMCAD 3521 Score = 17.3 bits (33), Expect = 7.3, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = -2 Query: 54 IHEPTKGTITINNISYNKL 72 +H+ T+GTIT + + L Sbjct: 1914 LHQ*TRGTITDDTFDRDHL 1858 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALSB_ECOLI P39265 D-allose-binding periplasmic protein (ALBP) (Precursor) (311 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.31, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = -1 Query: 293 IPLDKAPEFKLV 304 +P+DKAP F L+ Sbjct: 259 LPVDKAPSFHLL 224 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +1 Query: 214 NPNIKAIYCANDTMAM 229 +PN + NDT AM Sbjct: 1663 DPNYLVLEFRNDTSAM 1710 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALSC_ECOLI P32720 D-allose transport system permease protein alsC (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.16, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 16/22 (72%) Frame = -2 Query: 46 YFLTTNNITQIFVQSSVTVLIG 67 YFL + +TQIF +++TVL+ Sbjct: 2805 YFLIFSWLTQIFPLTALTVLLA 2740 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALSE_ECOLI P32719 D-allulose-6-phosphate 3-epimerase (5.1.3.-) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALSK_ECOLI P32718 D-allose kinase (Allokinase) (2.7.1.55) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.44, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = +1 Query: 79 KRTIISTPNLPL 90 KRT I+TPN L Sbjct: 5647 KRTYINTPNAEL 5682 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = +1 Query: 195 RWYEQQPRNYPLRDLF 210 RW++ RN+ ++ F Sbjct: 3121 RWFKSGSRNHF*KNFF 3168 Score = 16.5 bits (31), Expect = 7.6, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -2 Query: 225 NAARAIATSINL 236 NAAR+ ATS + Sbjct: 1518 NAARSTATSASF 1483 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ALX_ECOLI P42601 Inner membrane protein alx (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 14/44 (31%), Positives = 19/44 (43%) Frame = -3 Query: 191 HFFVRKNGLLYATPLMLVLILVELSDVIFAVDSIPAIFAVTTDP 234 +FF GLL+ + + L LS +FA S A F T Sbjct: 5846 NFFFSTIGLLFVSAIFFALASFALS--LFACSSALAGFFSTCST 5721 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMIA_ECOLI P36548 Probable N-acetylmuramoyl-L-alanine amidase amiA (3.5.1.28) (Precursor) (289 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 11/21 (52%) Frame = -3 Query: 148 FALSNRGASSAMAKYLSEREN 168 FALS SSA+A + S Sbjct: 5783 FALSLFACSSALAGFFSTCST 5721 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 72 AIGRNGSKEKHV 83 AIGRNG + V Sbjct: 4820 AIGRNGQNVRLV 4855 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMIB_ECOLI P26365 N-acetylmuramoyl-L-alanine amidase amiB (3.5.1.28) (Precursor) (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 10/13 (76%) Frame = -2 Query: 230 LNDDPMFKGVLTR 242 ++ P+F+ +LTR Sbjct: 4011 VSKSPVFRSILTR 3973 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 4/44 (9%) Frame = -2 Query: 262 ANFLVSIHADAAPNRSAT----GASVWVLSNRRANSEMASWLEQ 301 + F +S+ +D + S + A W RRA + SWL Q Sbjct: 2895 SQFKISLCSDTKISTSLSLRNIAARFW----RRAYFLIFSWLTQ 2776 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 7 NWLVATLL 14 NWL+ TLL Sbjct: 6261 NWLIETLL 6238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMIC_ECOLI P63883 N-acetylmuramoyl-L-alanine amidase amiC (3.5.1.28) (Precursor) (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 14/20 (70%) Frame = +2 Query: 381 EEERKLKTATFQQEVAESIL 400 E+E K+ TAT ++ ESI+ Sbjct: 4265 EQEGKIVTATVKKVSRESII 4324 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +2 Query: 251 AKAQKQRADLFVSIHA 266 K + R FVSIH+ Sbjct: 2357 VKLRLHRLQAFVSIHS 2404 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMID_ECOLI P75820 N-acetylmuramoyl-L-alanine amidase amiD (3.5.1.28) (Precursor) (276 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMN_ECOLI P0AE12 AMP nucleosidase (3.2.2.4) (484 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.37, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 16/24 (66%) Frame = +2 Query: 102 TLLYQDYGAHISVQPSQHEIPYPY 125 ++L Q+Y + +S Q S EIP+ + Sbjct: 6881 SVLEQNYLSTVSCQKSGEEIPHLF 6952 Score = 20.4 bits (41), Expect = 0.75, Method: Compositional matrix adjust. Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 1/56 (1%) Frame = +1 Query: 164 HPTEFSPLSHFDARRVDFSLARLRHYTGTPVEHFQ-PFVLFTNYTRYVDEFVRWGC 218 H + LS+ +V+ L++L G + F+ F LF N DEF GC Sbjct: 2044 HLAQMKKLSY----QVNDVLSKLFDDAGLILVDFKLEFGLFENKITLGDEFSPDGC 2199 Score = 17.7 bits (34), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -1 Query: 142 LTRYFPTTELAQI 154 T +FPTTE +I Sbjct: 4039 FTDHFPTTEGLEI 4001 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMO_ECOLI P46883 Primary amine oxidase (1.4.3.21) (Copper amine oxidase) (Tyramine oxidase) (2-phenylethylamine oxidase) (Precursor) (757 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPA_ECOLI P68767 Cytosol aminopeptidase (3.4.11.1) (Leucine aminopeptidase) (LAP) (Leucyl aminopeptidase) (Aminopeptidase A/I) (503 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -2 Query: 353 AEGRLVLCDVLT 364 GR++ CD L+ Sbjct: 672 CNGRIIPCDALS 637 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPC_ECOLI P00811 Beta-lactamase (3.5.2.6) (Cephalosporinase) (Precursor) (377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -2 Query: 203 TWINVPPAEEK 213 TW N PP +K Sbjct: 3372 TWTNSPPRHKK 3340 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPD_ECOLI P13016 1,6-anhydro-N-acetylmuramyl-L-alanine amidase ampD (3.5.1.28) (N-acetylmuramoyl-L-alanine amidase) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -1 Query: 29 TLLVVHNISLPP 40 LLV+ N+S+ P Sbjct: 5926 ALLVLQNVSVQP 5891 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPE_ECOLI P0AE14 Protein ampE (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPG_ECOLI P0AE16 Protein ampG (491 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPH_ECOLI P0AD70 Penicillin-binding protein ampH (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.68, Method: Compositional matrix adjust. Identities = 11/46 (23%), Positives = 21/46 (45%) Frame = +3 Query: 223 TPSPDQCRRLMVAERGASPCNNTLAAIGSGGVYSTPGDMMRWMQQY 268 P C+ +++A CN+ + G++ MMRW++ Y Sbjct: 1389 NPVAISCKWVILAT--VVACNSPILK----GIH*INNKMMRWLRCY 1508 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -3 Query: 241 PCNNTLAAIG 250 PC NT++AI Sbjct: 2591 PCCNTISAIS 2562 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPM_ECOLI P0AE18 Methionine aminopeptidase (MAP) (3.4.11.18) (Peptidase M) (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.20, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = -1 Query: 119 TIMGERLCRITQESLYL 135 TI RLCRIT + Y+ Sbjct: 4837 TIAPNRLCRITFFNCYV 4787 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -3 Query: 72 SINEVVCHGIPDDAK 86 SIN +C GI K Sbjct: 332 SINNSLCSGIKRSFK 288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPN_ECOLI P04825 Aminopeptidase N (3.4.11.2) (Alpha-aminoacylpeptide hydrolase) (870 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.30, Method: Compositional matrix adjust. Identities = 37/144 (25%), Positives = 62/144 (43%), Gaps = 30/144 (20%) Frame = +2 Query: 481 LHIPFAIELYDNEGKVIPLQKGGHPVNSVLNVTQAEQTFVFDNVYFQP--VPALL----- 533 L+ P L ++G ++PLQ G + + V ++Q V + +P P +L Sbjct: 614 LNAPALKRLNASQGIILPLQHGTYDIAQV-----SQQGAVGKQLDIRPPIQPLVLLKGSR 778 Query: 534 CEFSAPV-KL--------EYKWSDQQLTFLMRHARNDFS-RWDAAQSLLATYIKLN---- 579 E +A + KL + WS Q+T +M++ + R DA Q+L +IK N Sbjct: 779 IESTADISKLLLDNNRQNDTLWS--QITTVMQNESLPIADRQDANQTLTTDWIKWNRADE 952 Query: 580 ---------VARHQQGQPLSLPVH 594 ++ QQG L+L V Sbjct: 953 DVPFAGRYQISVQQQGNQLALVVK 1024 Score = 20.4 bits (41), Expect = 1.6, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%) Frame = +2 Query: 42 AVRHGASDAPLRLNGEDLKLVS 63 AV G S + NG++++LVS Sbjct: 4793 AVEEGNSAQAIGRNGQNVRLVS 4858 Score = 19.2 bits (38), Expect = 3.6, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 13/20 (65%) Frame = -3 Query: 429 SNVDLSHFRRWYSQSGTPIV 448 SNV LSH R+ ++ +P V Sbjct: 2225 SNVFLSHKRQPSGENSSPKV 2166 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMPP_ECOLI P15034 Xaa-Pro aminopeptidase (3.4.11.9) (X-Pro aminopeptidase) (Aminopeptidase P II) (APP-II) (Aminoacylproline aminopeptidase) (441 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMTB_ECOLI P69681 Ammonia channel (Ammonia transporter) (Precursor) (428 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.29, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 13/19 (68%) Frame = +2 Query: 139 GALAERIRFSAVLIFVVVW 157 +AER++ S +L +++W Sbjct: 1622 SCIAERLKLSTLLKILIIW 1678 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = -2 Query: 121 IHVAFQGSFACITVGLIVGALAERI 145 + FQ S C+T GL+ L+ + Sbjct: 5916 FYRTFQFSRFCLTAGLVTLLLSRQF 5842 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMY1_ECOLI P25718 Alpha-amylase (3.2.1.1) (1,4-alpha-D-glucan glucanohydrolase) (Precursor) (676 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AMY2_ECOLI P26612 Cytoplasmic alpha-amylase (3.2.1.1) (1,4-alpha-D-glucan glucanohydrolase) (495 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.78, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = -2 Query: 258 KPLFIVAEYWSHEVDKLQT 276 K LFI+ Y+ H +LQT Sbjct: 2481 KMLFIMCLYF*HR*RRLQT 2425 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = -2 Query: 156 DFKCFSGIDHIE 167 DF+CFS +D ++ Sbjct: 6831 DFRCFSMLDGLD 6796 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 10/24 (41%) Frame = -2 Query: 470 VTDENGEATFFCNGGSVSVWVIEE 493 +T + FC +VWV+ Sbjct: 4251 ITTARSASRTFCTITCFAVWVVMR 4180 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ANMK_ECOLI P77570 Anhydro-N-acetylmuramic acid kinase (2.7.1.n1) (AnhMurNAc kinase) (369 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ANSP_ECOLI P77610 L-asparagine permease (L-asparagine transport protein) (499 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = +3 Query: 370 NYLVPSRVFEIVLNFASLG 388 NYL+ V + LNF++L Sbjct: 4452 NYLLAVHVLKC*LNFSALK 4508 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APAG_ECOLI P62672 Protein apaG (125 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APAH_ECOLI P05637 Bis(5'-nucleosyl)-tetraphosphatase [symmetrical] (3.6.1.41) (Diadenosine tetraphosphatase) (Ap4A hydrolase) (Diadenosine 5',5'''-P1,P4-tetraphosphate pyrophosphohydrolase) (280 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%), Gaps = 3/17 (17%) Frame = +3 Query: 18 ALLHK---VEFTPGKDT 31 AL HK VEF PG+ + Sbjct: 3414 ALGHKLVGVEFIPGRQS 3464 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 11/22 (50%) Frame = -3 Query: 201 EEAPAPLKPWFAIPGPVAEEYS 222 EEAPAP + + P P S Sbjct: 2636 EEAPAPNEAPISAPLPCCNTIS 2571 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 8/17 (47%) Frame = -2 Query: 12 CYDELIALLHKVEFTPG 28 C D AL H +PG Sbjct: 3579 CRDR*SALQHLARHSPG 3529 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +3 Query: 68 LHLLAVFAGISRNK 81 L L A+F +RN+ Sbjct: 2418 LRLFAIFFSDARNR 2459 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APBE_ECOLI P0AB85 Thiamine biosynthesis lipoprotein apbE (Precursor) (351 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.29, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 11/13 (84%) Frame = +1 Query: 339 SPQFKSFLVSEKN 351 +P+F+ FL+ EKN Sbjct: 3280 NPEFRGFLLFEKN 3318 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APHA_ECOLI P0AE22 Class B acid phosphatase (3.1.3.2) (Precursor) (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 201 RDVGARGIRILRA 213 RD+G G LRA Sbjct: 6493 RDMGVAGESALRA 6531 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APPB_ECOLI P26458 Cytochrome bd-II oxidase subunit 2 (1.10.3.-) (Cytochrome bd-II oxidase subunit II) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APPC_ECOLI P26459 Cytochrome bd-II oxidase subunit 1 (1.10.3.-) (Cytochrome bd-II oxidase subunit I) (514 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +1 Query: 162 DTLRMEMTSFS 172 +TLR+ MTS + Sbjct: 388 ETLRLPMTSLT 420 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APPY_ECOLI P05052 HTH-type transcriptional regulator appY (M5 polypeptide) (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = +1 Query: 22 VISFKKNSLFIVSDKIRRELPVC 44 ++ KK + SDK RRE Sbjct: 5827 IVEKKKLTTQQQSDKTRREAEAA 5895 Score = 16.2 bits (30), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -3 Query: 112 LCISLLAMFKKRESVN 127 LC + FK+ SVN Sbjct: 317 LCSGIKRSFKRPASVN 270 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= APT_ECOLI P69503 Adenine phosphoribosyltransferase (APRT) (2.4.2.7) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.82 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.82, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +1 Query: 132 GGTIEATVKLIRRLG 146 GG IEA ++ +R+G Sbjct: 2260 GGVIEAYEQVAKRIG 2304 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 14/27 (51%) Frame = +1 Query: 103 EYGTDQLEIHVDAIKPGDKVLVVDDLL 129 E+G D +HV A K +DDLL Sbjct: 6925 EWGGDSPFVHVSAKKGTG----IDDLL 6993 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 8/9 (88%) Frame = +2 Query: 114 DAIKPGDKV 122 + I+PGD++ Sbjct: 4382 ENIRPGDRI 4408 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AQPZ_ECOLI P60844 Aquaporin Z (Bacterial nodulin-like intrinsic protein) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 12/15 (80%) Frame = -1 Query: 166 IGLALTLIHLISIPV 180 + LAL L+H++++ V Sbjct: 5560 VYLALDLVHVLNVLV 5516 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAA_ECOLI P08202 L-arabinose isomerase (5.3.1.4) (500 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 16/30 (53%) Frame = -1 Query: 390 PAIVASLIDLGDRYRLLVNCIDTVKTPHSL 419 P +ASL + + + N +DT ++ S+ Sbjct: 2461 PLFLASLKKIANNLNAI*NGVDTNESLQSV 2372 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAB_ECOLI P08204 Ribulokinase (2.7.1.16) (566 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.067 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.067, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 15/25 (60%) Frame = +1 Query: 452 VNNVMALGGIARKNQVIMQACCDVL 476 + +M LGG+A NQVI Q ++ Sbjct: 6349 IKTMMKLGGMATINQVIDQETAQLV 6423 Score = 24.3 bits (51), Expect = 0.071, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 13/37 (35%) Frame = -2 Query: 106 PEFAENPNAMFVLWKDHTAVEEAEEITRLCHAPGNVD 142 F NP +F H + + +R C G V Sbjct: 5973 TRFFSNPFRVFFYLTAHFSFYRTFQFSRFCLTAGLVT 5863 Score = 21.6 bits (44), Expect = 0.48, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 10/20 (50%) Frame = -3 Query: 24 GEEIATSVEWYPRWQKGQFC 43 G + +V +PR+ FC Sbjct: 1667 GSSVV*TVLAFPRYNSANFC 1608 Score = 20.0 bits (40), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 14/31 (45%) Frame = +1 Query: 345 FGRVLGWPLEQLAAQHPELKTQINASQKQLL 375 + + GW E AQ +L Q+N +L Sbjct: 2011 YCKAFGWASEAHLAQMKKLSYQVNDVLSKLF 2103 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 539 YQQWAMSAEQHYLP 552 YQQW +S +P Sbjct: 797 YQQWTLSGNPLIVP 756 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAC_ECOLI P0A9E0 Arabinose operon regulatory protein (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.6, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 12/24 (50%) Frame = -3 Query: 101 RAYWHEWLNWPSIFANTGFFRPDE 124 + ++ +WL P + + PDE Sbjct: 3167 KKFF*KWLREPDLNQRPSGYEPDE 3096 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAD_ECOLI P08203 L-ribulose-5-phosphate 4-epimerase (5.1.3.4) (Phosphoribulose isomerase) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.25 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.25, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +3 Query: 63 TGEVVEGTKKPSSDTP 78 TGE V +KPS+ +P Sbjct: 1905 TGEAVRDYRKPSAKSP 1952 Score = 16.5 bits (31), Expect = 5.0, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 12/29 (41%) Frame = +1 Query: 47 DYSVMTADDMVVVSIETGEVVEGTKKPSS 75 DY V T+ E VEG ++ S Sbjct: 6037 DYHVTTSQHARAAEDENDAKVEGDRRSRS 6123 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAE_ECOLI P0AE24 Arabinose-proton symporter (Arabinose transporter) (472 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = +1 Query: 367 MCIAGYAMSAAPVVWIL 383 M +AG + APVV I+ Sbjct: 6499 MGVAGESALRAPVVTIM 6549 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAF_ECOLI P02924 L-arabinose-binding periplasmic protein (ABP) (Precursor) (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +3 Query: 114 QFVNAKGKPMDTVPL 128 FVN KGK + +PL Sbjct: 4257 NFVNKKGKLLQ-LPL 4298 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAG_ECOLI P0AAF3 Arabinose import ATP-binding protein araG (3.6.3.17) (504 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.38, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%) Frame = -2 Query: 248 IYGWQPRSYGEERLRLDAVKAPG 270 I W PR+ G ++ +++PG Sbjct: 4461 INNWGPRASGRISYKIPLMRSPG 4393 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = +3 Query: 192 EGRVILYVSHRMEEIFALSD 211 +G +I+ +E+FALS+ Sbjct: 3723 DGEMIIVTVDGKDEVFALSN 3782 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAH_ECOLI P0AE26 L-arabinose transport system permease protein araH (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -1 Query: 173 LPAPIWLTVAC 183 LPA +WL ++C Sbjct: 5413 LPATLWLHLSC 5381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARAJ_ECOLI P23910 Protein araJ (394 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARCA_ECOLI P0A9Q1 Aerobic respiration control protein arcA (Dye resistance protein) (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -2 Query: 160 KLPRSEFRAML 170 ++PR +FR M Sbjct: 3249 RIPRHDFR*MF 3217 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +2 Query: 186 LKKMTG 191 LKKMTG Sbjct: 3308 LKKMTG 3325 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARCB_ECOLI P0AEC3 Aerobic respiration control sensor protein arcB (2.7.13.3) (778 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARCC_ECOLI P37306 Carbamate kinase (2.7.2.2) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 3/38 (7%) Frame = -1 Query: 166 SEAIELLLKEGHVVICSGG---GGVPVTDDGAGSEAVI 200 S+ I LLL + C G G VP GSE +I Sbjct: 1012 SKLISLLLHTNLITACKGDIFIGSVPFYP--IGSERLI 905 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARCD_ECOLI P0AAE5 Putative arginine/ornithine antiporter (460 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.49, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 14/32 (43%) Frame = -2 Query: 275 EMMGPWGEIIIAAGLIVSVCGAYLSWTIMAAE 306 + GP+ +I G +WT+ AAE Sbjct: 3345 KKKGPYSPVIFFK*QKTPKLGV*YNWTLFAAE 3250 Score = 16.9 bits (32), Expect = 7.4, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 13/25 (52%) Frame = -2 Query: 367 LVPYFLVGAFLLKIATRPLHKAVGV 391 + +FL G+F AT + +G+ Sbjct: 6162 FIAFFLFGSFTSPAATTAISFNLGI 6088 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARCL_ECOLI Q46807 Carbamate kinase-like protein yqeA (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARCM_ECOLI P77624 Carbamate kinase-like protein yahI (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.32, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = +1 Query: 227 IHADILVITTGVEKVCIHFGKPQQQ 251 IH D L++ +C FG+ +Q Sbjct: 3013 IHRDSLLLDDDQRTICYVFGRGMEQ 3087 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGA_ECOLI P0A6C5 Amino-acid acetyltransferase (2.3.1.1) (N-acetylglutamate synthase) (AGS) (NAGS) (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -1 Query: 18 PYINTHRGKT 27 P ++HRGKT Sbjct: 2209 PTSDSHRGKT 2180 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGB_ECOLI P0A6C8 Acetylglutamate kinase (2.7.2.8) (NAG kinase) (AGK) (N-acetyl-L-glutamate 5-phosphotransferase) (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 5/5 (100%) Frame = -1 Query: 236 SWRHA 240 SWRH+ Sbjct: 4744 SWRHS 4730 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGC_ECOLI P11446 N-acetyl-gamma-glutamyl-phosphate reductase (AGPR) (1.2.1.38) (N-acetyl-glutamate semialdehyde dehydrogenase) (NAGSA dehydrogenase) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = -2 Query: 150 AVPGCYPTAAQLALKPLIDADLLDL 174 AVP CY A + ++ A +++L Sbjct: 5382 AVPSCYSYYALSPNQQILRAAIINL 5308 Score = 16.9 bits (32), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 264 YAHKPLVRLYDK 275 Y H PLV L D+ Sbjct: 1202 YRHVPLVPLGDR 1167 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGD_ECOLI P18335 Acetylornithine/succinyldiaminopimelate aminotransferase (ACOAT) (Succinyldiaminopimelate transferase) (DapATase) (2.6.1.11) (2.6.1.17) (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 77 ISNVFTN 83 ISN+FTN Sbjct: 1862 ISNLFTN 1842 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGE_ECOLI P23908 Acetylornithine deacetylase (Acetylornithinase) (AO) (3.5.1.16) (N-acetylornithinase) (NAO) (383 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.59 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.59, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 14/32 (43%) Frame = -1 Query: 272 NELNGLLNDALAPVSERWPGRLTVDELHPPIP 303 NE N + W R V ++HPP+P Sbjct: 6595 NECNQAMKSYHDQHDP*W*RRGRVKQIHPPLP 6500 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGK_ECOLI P27254 LAO/AO transport system kinase (2.7.-.-) (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 245 GIDEIWHAII 254 G+D +WH I Sbjct: 6804 GLDRLWHDPI 6775 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +1 Query: 148 DVVIVETVGVGQ 159 DV+I ETV V + Sbjct: 6277 DVIIGETVTVAE 6312 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGO_ECOLI P11667 Arginine exporter protein argO (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGR_ECOLI P0A6D0 Arginine repressor (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.033 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.033, Method: Compositional matrix adjust. Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%) Frame = -2 Query: 132 FTTPANGFTVKDLYEAILEL--FDQEL 156 FT+PA GFTV I++L F ++L Sbjct: 2040 FTSPAKGFTVSLTDNGIVQLIIFQKQL 1960 Score = 21.2 bits (43), Expect = 0.14, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = -1 Query: 38 FDNINQSKVSRMLTKFGAV 56 F + Q VSR+L +GA+ Sbjct: 5977 FYALLQQPVSRLLLSYGAL 5921 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARGT_ECOLI P09551 Lysine-arginine-ornithine-binding periplasmic protein (LAO-binding protein) (Precursor) (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARIR_ECOLI P75993 Regulatory protein ariR (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.8, Method: Composition-based stats. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -1 Query: 48 VNNKNIILSLIHSLE 62 VNN LS HS++ Sbjct: 4768 VNNDRSYLSWRHSVK 4724 Score = 15.4 bits (28), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +3 Query: 51 KNIILSLIHSLETTSDILK 69 KN L + L S+ILK Sbjct: 4908 KNAKLKPVQRLICLSNILK 4964 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARLY_ECOLI P11447 Argininosuccinate lyase (ASAL) (4.3.2.1) (Arginosuccinase) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARNA_ECOLI P77398 Bifunctional polymyxin resistance protein arnA (Polymyxin resistance protein pmrI) (UDP-4-amino-4-deoxy-L-arabinose formyltransferase) (2.1.2.n1) (UDP-L-Ara4N formyltransferase) (ArnAFT) (UDP-glucuronic acid oxidase, UDP-4-keto-hexauronic acid decarboxylating) (1.1.1.n1) (UDP-GlcUA decarboxylase) (UDP-glucuronic acid dehydrogenase) (ArnADH) (660 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.2, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 14/28 (50%) Frame = +2 Query: 243 WSSRVHPHASKAQPGSVISVAPLLIACG 270 W S + K + V+S P+ +ACG Sbjct: 2126 WISNWNLACLKIKSPWVMSFPPMAVACG 2209 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARNB_ECOLI P77690 UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferase (2.6.1.n1) (UDP-(beta-L-threo-pentapyranosyl-4''-ulose diphosphate) aminotransferase) (UDP-Ara4O aminotransferase) (Polymyxin resistance protein pmrH) (379 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.75 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.75, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = -3 Query: 29 ITTGPKNQALEQAFCQ 44 + +G + ALE +FCQ Sbjct: 5111 VHSGHDHAALEASFCQ 5064 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = -2 Query: 204 RMLKFHGLGVD 214 R+ +FH LG++ Sbjct: 2952 RVYQFHHLGIE 2920 Score = 17.3 bits (33), Expect = 5.6, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -2 Query: 342 LPNTEWNSERICSL 355 L TEW + CSL Sbjct: 2415 LFKTEWILTKACSL 2374 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARNC_ECOLI P77757 Undecaprenyl-phosphate 4-deoxy-4-formamido-L-arabinose transferase (2.7.8.n1) (Undecaprenyl-phosphate Ara4FN transferase) (Ara4FN transferase) (Polymyxin resistance protein pmrF) (322 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 12/24 (50%) Frame = -1 Query: 12 VVIPVYNEQESLPELIRRTTTACE 35 ++IP + P+L+R + C Sbjct: 4708 IIIPQNDINTFSPQLVRHSLNTCS 4637 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -3 Query: 3 EIHPVKKVSVVIP 15 + HP K+ V+P Sbjct: 4709 DYHPTKRYQYVLP 4671 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARND_ECOLI P76472 Probable 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase arnD (3.5.1.n3) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = +1 Query: 276 VRGNIAGREGWLGC 289 VRG AGR GC Sbjct: 5221 VRGLYAGRSCRTGC 5262 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARNE_ECOLI Q47377 Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit arnE (L-Ara4N-phosphoundecaprenol flippase subunit arnE) (Undecaprenyl phosphate-aminoarabinose flippase subunit arnE) (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.30, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = -2 Query: 83 KLWHEPVSPRH 93 +LWH+P+ R+ Sbjct: 6795 RLWHDPIIGRN 6763 Score = 15.8 bits (29), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = -1 Query: 71 SLNFVWVTLAAVKLWHEPVSP 91 +LNF W+ L E +SP Sbjct: 100 ALNFQWLLLTR*YWGFELISP 38 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARNF_ECOLI P76474 Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit arnF (L-Ara4N-phosphoundecaprenol flippase subunit arnF) (Undecaprenyl phosphate-aminoarabinose flippase subunit arnF) (128 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.84 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.84, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +2 Query: 116 LMLIFLPTTKQRY 128 LML+ +T+QRY Sbjct: 545 LMLLAACSTEQRY 583 Score = 15.4 bits (28), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -1 Query: 18 LSLGFAASHLPPMT 31 + +GF +HL +T Sbjct: 619 IKIGFITAHLAFIT 578 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARNT_ECOLI P76473 Undecaprenyl phosphate-alpha-4-amino-4-deoxy-L-arabinose arabinosyl transferase (2.-.-.-) (Undecaprenyl phosphate-alpha-L-Ara4N transferase) (4-amino-4-deoxy-L-arabinose lipid A transferase) (Polymyxin resistance protein pmrK) (550 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/35 (20%), Positives = 13/35 (37%) Frame = -2 Query: 365 PWGPMNTPVWQTFESYKVFCAWSIFSLWAFFGWYT 399 P N + + + FC + F++W T Sbjct: 4275 PSCSRNCSITTARSASRTFCTITCFAVWVVMRSKT 4171 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROA_ECOLI P0A6D3 3-phosphoshikimate 1-carboxyvinyltransferase (2.5.1.19) (5-enolpyruvylshikimate-3-phosphate synthase) (EPSP synthase) (EPSPS) (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -2 Query: 382 YNDHRMAMCFSLVALS 397 Y H + C+S ALS Sbjct: 5394 YICHAVPSCYSYYALS 5347 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROB_ECOLI P07639 3-dehydroquinate synthase (4.2.3.4) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -1 Query: 85 FTALLQKPHGR 95 F ALLQ+P R Sbjct: 5977 FYALLQQPVSR 5945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROC_ECOLI P12008 Chorismate synthase (4.2.3.5) (5-enolpyruvylshikimate-3-phosphate phospholyase) (361 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROD_ECOLI P05194 3-dehydroquinate dehydratase (3-dehydroquinase) (4.2.1.10) (Type I DHQase) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROE_ECOLI P15770 Shikimate dehydrogenase (1.1.1.25) (272 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 12/17 (70%) Frame = +3 Query: 42 DFINTLNAFFSAGGKGA 58 DFI L++F + G+G+ Sbjct: 6570 DFIA*LHSFDQSCGRGS 6620 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +1 Query: 250 LLWHGVLPD 258 L HG+LP+ Sbjct: 6898 LSQHGILPE 6924 Score = 16.2 bits (30), Expect = 8.4, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = +2 Query: 142 DCAVTITNRTVSRAEELA 159 +CA + S EELA Sbjct: 4973 ECATVLVEAEFSSLEELA 5026 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROF_ECOLI P00888 Phospho-2-dehydro-3-deoxyheptonate aldolase, Tyr-sensitive (2.5.1.54) (Phospho-2-keto-3-deoxyheptonate aldolase) (3-deoxy-D-arabino-heptulosonate 7-phosphate synthase) (DAHP synthetase) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROG_ECOLI P0AB91 Phospho-2-dehydro-3-deoxyheptonate aldolase, Phe-sensitive (2.5.1.54) (Phospho-2-keto-3-deoxyheptonate aldolase) (3-deoxy-D-arabino-heptulosonate 7-phosphate synthase) (DAHP synthetase) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +3 Query: 279 MDVCADVCQQIAG 291 +D+CADV Q++ Sbjct: 3504 VDMCADVSYQVSA 3542 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROH_ECOLI P00887 Phospho-2-dehydro-3-deoxyheptonate aldolase, Trp-sensitive (2.5.1.54) (Phospho-2-keto-3-deoxyheptonate aldolase) (3-deoxy-D-arabino-heptulosonate 7-phosphate synthase) (DAHP synthetase) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.87 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.87, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 10/15 (66%) Frame = -2 Query: 145 DMVTGQFIADLISWG 159 DMV GQF DL +G Sbjct: 6048 DMVIGQF--DLFGYG 6010 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 255 FDLPEHLV 262 + LPEHLV Sbjct: 6748 YLLPEHLV 6725 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROK_ECOLI P0A6D7 Shikimate kinase 1 (SK 1) (2.7.1.71) (Shikimate kinase I) (SKI) (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROL_ECOLI P0A6E1 Shikimate kinase 2 (SK 2) (2.7.1.71) (Shikimate kinase II) (SKII) (174 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.069 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.069, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 2/34 (5%) Frame = +1 Query: 72 STVIATG--GGIILTEFNRHFMQNNGIVVYLCAP 103 ST +A G GGI H NG+V +L P Sbjct: 6595 STKVAAGEAGGITQHIGAYHVETENGMVTFLDTP 6696 Score = 16.9 bits (32), Expect = 2.9, Method: Compositional matrix adjust. Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 2/38 (5%) Frame = -1 Query: 4 PLFLIGPRGCGKTTVGMALADSLNR--RFVDTDQWLQS 39 PLFL + +A++LN VDT++ LQS Sbjct: 2461 PLFLASLK---------KIANNLNAI*NGVDTNESLQS 2375 Score = 16.5 bits (31), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = -2 Query: 93 NNGIVVYLCAPVSVL 107 N GI+ C P SVL Sbjct: 6099 NLGIIFIFCCP-SVL 6058 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -3 Query: 99 YLCAPV 104 +LCAP+ Sbjct: 2882 FLCAPI 2865 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROM_ECOLI P0AE28 Protein aroM (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -3 Query: 189 DCLGFHQRH 197 +CL QRH Sbjct: 737 ECLTVCQRH 711 Score = 15.8 bits (29), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 114 EPSRILPP 121 +P+R LPP Sbjct: 2984 KPNRALPP 2961 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AROP_ECOLI P15993 Aromatic amino acid transport protein aroP (General aromatic amino acid permease) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 401 LYPLGNWICLLF 412 L PLG+ CL F Sbjct: 1187 LVPLGDRFCLCF 1152 Score = 17.7 bits (34), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 10/15 (66%) Frame = -2 Query: 40 VIQSAGPGIILGYAI 54 + +S PG++ GY + Sbjct: 3819 IFKSGVPGLLCGYCL 3775 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARPA_ECOLI P23325 Ankyrin repeat protein A (Ankyrin-like regulatory protein) (728 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = -3 Query: 438 ISRKDKNVVTSILNALPKLAATHH 461 IS +VTS++ LP TH+ Sbjct: 5420 ISAASNFMVTSVMLFLPATVITHY 5349 Score = 18.5 bits (36), Expect = 4.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 699 SFGFTDNPRY 708 ++GF PRY Sbjct: 2981 AYGFKSRPRY 3010 Score = 17.7 bits (34), Expect = 9.2, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = -3 Query: 259 CTHYVVSVY 267 C H++ S+Y Sbjct: 3773 CEHFIFSIY 3747 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARPB_ECOLI P76205 Putative ankyrin repeat protein B (632 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 11/13 (84%) Frame = -2 Query: 246 ANNVSHMSAILYI 258 ANN+SH + I++I Sbjct: 558 ANNISHKTLIIFI 520 Score = 18.9 bits (37), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +2 Query: 87 HTENILITLHYKKE 100 +N+L TL KKE Sbjct: 5096 RAQNVLTTLALKKE 5137 Score = 17.7 bits (34), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +2 Query: 163 QSPSDAIFC 171 Q+PS +FC Sbjct: 3278 QTPSFGVFC 3304 Score = 17.7 bits (34), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -3 Query: 331 ILPLLPVGVP 340 ++P+LP+G P Sbjct: 2516 VVPILPMGSP 2487 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARSB_ECOLI P0AB93 Arsenical pump membrane protein (Arsenic efflux pump protein) (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -2 Query: 187 IVATLVMLHLYFRKDIPQ 204 I + +HL+ R IPQ Sbjct: 2256 IATKAIFIHLF*RLFIPQ 2203 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARSC_ECOLI P0AB96 Arsenate reductase (1.20.4.1) (Arsenical pump modifier) (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -3 Query: 94 RPIVVTPLGTRLC 106 R + + PLG R C Sbjct: 1199 RHVPLVPLGDRFC 1161 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARSR_ECOLI P37309 Arsenical resistance operon repressor (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARTA_ECOLI P18032 Protein artA (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.51, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 11/15 (73%) Frame = -2 Query: 71 FCELFRSHWIAVWFI 85 FC ++ WI+VWFI Sbjct: 6897 FCS--KTLWISVWFI 6859 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARTI_ECOLI P30859 Putative ABC transporter arginine-binding protein 2 (Precursor) (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.79 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.79, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = -1 Query: 94 REKQVLFTTPYYDNSALFV 112 R KQ+ PY D+S++ + Sbjct: 6529 RVKQIHPPLPYRDHSSVLL 6473 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 14/26 (53%) Frame = +2 Query: 189 AAVGDKVTDKDYFGTGLGIAVRQGNT 214 A V V D+D + IAV +GN+ Sbjct: 4742 AEVASIVVDED--AKTMNIAVEEGNS 4813 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARTJ_ECOLI P30860 ABC transporter arginine-binding protein 1 (Precursor) (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.43, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 13/19 (68%) Frame = -1 Query: 94 RSKQVSFTTPYYENSAVVI 112 R KQ+ PY ++S+V++ Sbjct: 6529 RVKQIHPPLPYRDHSSVLL 6473 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 10/20 (50%) Frame = -2 Query: 88 MDITPERSKQVSFTTPYYEN 107 +TP ++ S TP+ N Sbjct: 5271 KSLTPCSARSSSVQTPHAAN 5212 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARTM_ECOLI P0AE30 Arginine ABC transporter permease protein artM (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = -3 Query: 145 KRSLSSYSN 153 KRSLS +SN Sbjct: 2246 KRSLSIFSN 2220 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARTP_ECOLI P0AAF6 Arginine transport ATP-binding protein artP (3.6.3.-) (242 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ARTQ_ECOLI P0AE34 Arginine ABC transporter permease protein artQ (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 155 PQMWRHAL 162 PQ+ RH+L Sbjct: 4672 PQLVRHSL 4649 Score = 15.8 bits (29), Expect = 9.6, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -3 Query: 203 TWYIVAAAIYLVITLLS 219 TW IVA +I L++ Sbjct: 6395 TWLIVAIPPSFIIVLMT 6345 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASCB_ECOLI P24240 6-phospho-beta-glucosidase ascB (3.2.1.86) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 164 CFEAFDGLVKYW 175 CF DGL + W Sbjct: 6822 CFSMLDGLDRLW 6787 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 15/31 (48%) Frame = +2 Query: 215 VASALATKIAHEVNPQNQVGCMLAGGNFYPY 245 +A A ATK HE + +V G+F + Sbjct: 3923 IALATATKKKHEQEIEVRVNIDRKTGDFETF 4015 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 17/34 (50%) Frame = -2 Query: 46 KLGLEKRFQLRDDEFYPSHEATDFYHRYKEDIAL 79 KLG+ + L E P H+ + + K DI+L Sbjct: 3291 KLGV*YNWTLFAAERIPRHDFR*MFFQIKIDISL 3190 Score = 16.9 bits (32), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +3 Query: 263 LFFIDVQARGT 273 +FF D + RGT Sbjct: 2433 IFFSDARNRGT 2465 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASCG_ECOLI P24242 HTH-type transcriptional regulator ascG (Cryptic asc operon repressor) (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -1 Query: 117 LRCDAIMIYPRFLS 130 L C +YP FL+ Sbjct: 2260 LNCHESDLYPSFLT 2219 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASLA_ECOLI P25549 Arylsulfatase (AS) (3.1.6.1) (Aryl-sulfate sulphohydrolase) (Precursor) (551 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.4, Method: Compositional matrix adjust. Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 1/30 (3%) Frame = -3 Query: 177 HDQGYVTQA-IGKWHMGENKESQPQNVGFD 205 H QG + I + NK +P+N GFD Sbjct: 3359 HPQGIKKKGLIAQSFFSNNK--KPRNSGFD 3276 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASLB_ECOLI P25550 Anaerobic sulfatase-maturating enzyme homolog aslB (AnSME homolog) (411 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 273 GAVCHHQPTC 282 G +CH P+C Sbjct: 5397 GYICHAVPSC 5368 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/14 (64%), Positives = 10/14 (71%), Gaps = 1/14 (7%) Frame = -3 Query: 25 CDYC-FYLEKQSLY 37 C YC FYL QS+Y Sbjct: 1142 CYYCGFYLSLQSIY 1101 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASMA_ECOLI P28249 Protein asmA (Precursor) (617 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.1, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 15/39 (38%) Frame = -1 Query: 506 VVTLNDMQGQSPVLALTGEGMLNLADQTCDTQFDIRVVG 544 ++ ND+ SP L + TC + D VV Sbjct: 4705 IIPQNDINTFSPQLVRHSLNTCSPHPNTCPYRIDTLVVS 4589 Score = 17.3 bits (33), Expect = 8.0, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 15/34 (44%) Frame = +2 Query: 569 WQQLNYSLQVDQLLRKHLQDEAKRRLNDWAERNK 602 W Q+ +Q + L QD + DW + N+ Sbjct: 842 WSQITTVMQNESLPIADRQDANQTLTTDWIKWNR 943 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASNA_ECOLI P00963 Aspartate--ammonia ligase (6.3.1.1) (Asparagine synthetase A) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASNB_ECOLI P22106 Asparagine synthetase B [glutamine-hydrolyzing] (6.3.5.4) (554 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.2, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 13/28 (46%) Frame = +1 Query: 314 YHIETYDVTTIRASTPMYLMSRKIKAMG 341 YH+ET + TP + ++A G Sbjct: 6649 YHVETENGMVTFLDTPGHAAFTSMRARG 6732 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASNC_ECOLI P0ACI6 Regulatory protein asnC (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = -1 Query: 90 ESLDEVTEAYYTTGHYSI 107 ESL V ++ YS+ Sbjct: 2389 ESLQSVQAQFHLKSFYSL 2336 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASPA_ECOLI P0AC38 Aspartate ammonia-lyase (Aspartase) (4.3.1.1) (478 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -2 Query: 372 MFESVHILTNAC 383 +F++ ILT AC Sbjct: 2415 LFKTEWILTKAC 2380 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASPG1_ECOLI P0A962 L-asparaginase 1 (3.5.1.1) (L-asparaginase I) (L-ASNase I) (L-asparagine amidohydrolase I) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.69, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 13/28 (46%) Frame = +2 Query: 34 QLALMPEFHRPEMPDFTIHEYTPLMDSS 61 +LA +PE PE+ F L D + Sbjct: 5018 ELAYVPESELPEIDSFDKKRLQELRDRA 5101 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 12/25 (48%) Frame = -2 Query: 126 SDGQINLLNALYVAANYPINEVTLF 150 S INL N + I EVT+F Sbjct: 1122 SKPSINLFNIARL*CCISIFEVTIF 1048 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASPG2_ECOLI P00805 L-asparaginase 2 (3.5.1.1) (L-asparaginase II) (L-ASNase II) (L-asparagine amidohydrolase II) (Colaspase) (Precursor) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 3/35 (8%) Frame = -2 Query: 211 YQRTPARKHTSDTPFD---VSKLNELPKVGIVYNY 242 + +P R H P+ K + PK+G+ YN+ Sbjct: 3369 WTNSPPR-HKKKGPYSPVIFFK*QKTPKLGV*YNW 3268 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASR_ECOLI P36560 Acid shock protein (Precursor) (102 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASSY_ECOLI P0A6E4 Argininosuccinate synthase (6.3.4.5) (Citrulline--aspartate ligase) (447 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.23, Method: Compositional matrix adjust. Identities = 9/38 (23%), Positives = 16/38 (42%) Frame = -1 Query: 183 YKMSVEKAYSTDSNMLGATHEAKDLEYLNSSVKIVNPI 220 Y + Y T + G TH + + S + + NP+ Sbjct: 2236 YPSFLTSFYPTSDSHRGKTHHPR*FYFQTSQIPV*NPL 2123 Score = 16.9 bits (32), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +1 Query: 333 QGRWFDS 339 +GRWF S Sbjct: 3115 EGRWFKS 3135 Score = 16.9 bits (32), Expect = 9.3, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = +1 Query: 50 EEDYDAIPRRAMEYGAEN 67 EED + A + AEN Sbjct: 5938 EEDAKRVAEEARKMAAEN 5991 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASTA_ECOLI P0AE37 Arginine N-succinyltransferase (AST) (2.3.1.109) (AOST) (344 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 125 LFLDPDW 131 LFL+P W Sbjct: 5135 LFLEPMW 5115 Score = 16.5 bits (31), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 172 YSPFWQSLG 180 YSP +SLG Sbjct: 3263 YSPLKESLG 3237 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASTB_ECOLI P76216 N-succinylarginine dihydrolase (3.5.3.23) (447 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +3 Query: 202 NDTRPSRYPARQ 213 N T +RYPAR+ Sbjct: 6891 NRTISARYPARR 6926 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASTC_ECOLI P77581 Succinylornithine transaminase (SOAT) (2.6.1.81) (Succinylornithine aminotransferase) (Carbon starvation protein C) (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = +1 Query: 194 GEGGVVPASNAFLQGLRELCNR 215 G+G + +N G+ ELC R Sbjct: 190 GQGIISVTANVAAGGMTELCQR 255 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASTD_ECOLI P76217 N-succinylglutamate 5-semialdehyde dehydrogenase (1.2.1.71) (Succinylglutamic semialdehyde dehydrogenase) (SGSD) (492 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.71, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 5/28 (17%) Frame = +2 Query: 296 ARLVAVS-----QRLTPGNWDDEPQPFI 318 AR+ AVS +R+ WDD P F+ Sbjct: 4640 ARVQAVSNELGGERIDIVLWDDNPAQFV 4723 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 8 DWITGQGASRVKRN 21 +WI + S KRN Sbjct: 2403 EWILTKACSLCKRN 2362 Score = 17.7 bits (34), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -3 Query: 340 MGGRPLLAPRL 350 + G PL+ PR+ Sbjct: 782 LSGNPLIVPRV 750 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ASTE_ECOLI P76215 Succinylglutamate desuccinylase (3.5.1.96) (322 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATDA_ECOLI P0A951 Spermidine N(1)-acetyltransferase (2.3.1.57) (Diamine acetyltransferase) (SAT) (186 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 86 FQIIISPEYQG 96 FQI +PE +G Sbjct: 3313 FQITKNPETRG 3281 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 10/28 (35%) Frame = -1 Query: 67 EKAGLVELVEINHVHRRAEFQIIISPEY 94 + G + I H H + I P Y Sbjct: 3007 PRTGFEPVSPIEHYHLKVACLPISPPRY 2924 Score = 15.8 bits (29), Expect = 7.3, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 1/35 (2%) Frame = -1 Query: 47 LYDKHIHDQSERRFVVECDG-EKAGLVELVEINHV 80 ++DKHI+ C G A ++LV+ +H+ Sbjct: 4957 MFDKHIN---------RCTGFSLAFFLKLVDRHHI 4880 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATKA_ECOLI P03959 Potassium-transporting ATPase A chain (3.6.3.12) (Potassium-translocating ATPase A chain) (ATP phosphohydrolase [potassium-transporting] A chain) (Potassium-binding and translocating subunit A) (557 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.9, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 14/24 (58%) Frame = -3 Query: 498 IPVMAIAGSLVSKKSQAASSGTLP 521 IPV +A + + +S SSG +P Sbjct: 6980 IPVPFLADT*TNGESPPHSSGRIP 6909 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATKB_ECOLI P03960 Potassium-transporting ATPase B chain (3.6.3.12) (Potassium-translocating ATPase B chain) (ATP phosphohydrolase [potassium-transporting] B chain) (Potassium-binding and translocating subunit B) (682 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.1, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 11/29 (37%) Frame = +2 Query: 422 QVARQGA-----------TPLVVVEGSRV 439 QV++QGA PLV+++GSR+ Sbjct: 695 QVSQQGAVGKQLDIRPPIQPLVLLKGSRI 781 Score = 19.2 bits (38), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 12/23 (52%) Frame = +2 Query: 287 VIATSGRAVEAAGDVDVLLLDKT 309 ++ G +E+ D+ LLLD Sbjct: 755 LVLLKGSRIESTADISKLLLDNN 823 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATKC_ECOLI P03961 Potassium-transporting ATPase C chain (3.6.3.12) (Potassium-translocating ATPase C chain) (ATP phosphohydrolase [potassium-transporting] C chain) (Potassium-binding and translocating subunit C) (190 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 1/40 (2%) Frame = +3 Query: 133 TPQAAAWQIPRVAKARNLSVEQLTQ-LIAKYSQQPLVKYI 171 T AAW + + R+L +LTQ L+ K+ + + I Sbjct: 3072 TRDGAAW*LVGLITRRSLVQIRLTQPLLEKFFSNTIFREI 3191 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/22 (22%), Positives = 13/22 (59%) Frame = -3 Query: 156 TQLIAKYSQQPLVKYIGQPVVN 177 ++++YS+ P + PV++ Sbjct: 1085 CNVVSRYSK*PFFLVVVNPVIS 1020 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATMA_ECOLI P0ABB8 Magnesium-transporting ATPase, P-type 1 (3.6.3.2) (Mg(2+) transport ATPase, P-type 1) (898 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 10/11 (90%) Frame = -1 Query: 293 IRFMLVMAPVV 303 +RF+L++ PVV Sbjct: 397 VRFLLLLIPVV 365 Score = 18.5 bits (36), Expect = 6.3, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 13/28 (46%) Frame = -3 Query: 58 DTHPEGLNQAEVESAREQHGENKLPAQQ 85 D HP Q + AR E+ LPA Q Sbjct: 4709 DYHPTKRYQYVLPPAR*TQLEHVLPASQ 4626 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATOA_ECOLI P76459 Acetate CoA-transferase subunit beta (2.8.3.8) (Acetyl-CoA:acetoacetate-CoA transferase subunit beta) (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATOB_ECOLI P76461 Acetyl-CoA acetyltransferase (2.3.1.9) (Acetoacetyl-CoA thiolase) (394 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.90, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%) Frame = +1 Query: 348 GHPIGASGARILVTLL 363 G PIG G + VTLL Sbjct: 2488 GDPIGRIGTTMYVTLL 2535 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%), Gaps = 1/21 (4%) Frame = -3 Query: 348 GHPIGASGARILV-TLLHAMQ 367 HP+ RIL+ L H M Sbjct: 1421 NHPLATDSYRILI*DLAHLMH 1359 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 10/15 (66%) Frame = -2 Query: 70 LLKSGLAETVCGFTV 84 + KSG+ +CG+ + Sbjct: 3819 IFKSGVPGLLCGYCL 3775 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATOC_ECOLI Q06065 Acetoacetate metabolism regulatory protein atoC (Ornithine/arginine decarboxylase inhibitor) (Ornithine decarboxylase antizyme) (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = -1 Query: 324 SLLANHFLQKFSSENQRDIIDIDPM 348 +L +HF Q + R +I +DP+ Sbjct: 3334 AL*PSHFFQITKNPETRGLIQLDPI 3260 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +2 Query: 64 IKALKEMRSHETRTPV 79 I LKE ETRT + Sbjct: 4892 INELKEKCQAETRTAI 4939 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATOD_ECOLI P76458 Acetate CoA-transferase subunit alpha (2.8.3.8) (Acetyl-CoA:acetoacetate-CoA transferase subunit alpha) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATOE_ECOLI P76460 Short-chain fatty acids transporter (440 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +1 Query: 393 EQWMNMAQP 401 +W N++QP Sbjct: 2761 SEWENLSQP 2787 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATOS_ECOLI Q06067 Signal transduction histidine-protein kinase atoS (2.7.13.3) (608 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATP6_ECOLI P0AB98 ATP synthase subunit a (F-ATPase subunit 6) (ATP synthase F0 sector subunit a) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.91, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 15/28 (53%) Frame = -1 Query: 239 VPWAIFHILIITLQAFIFMVLTIVYLSM 266 VP FH L+ +F V T VYL++ Sbjct: 5629 VPIYFFHRSSEHLKCSVFSVAT*VYLAL 5546 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -1 Query: 240 PWAIFHILI 248 PW FH+L+ Sbjct: 6097 PWHHFHLLL 6071 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPA_ECOLI P0ABB0 ATP synthase subunit alpha (3.6.3.14) (F-ATPase subunit alpha) (ATP synthase F1 sector subunit alpha) (513 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPB_ECOLI P0ABB4 ATP synthase subunit beta (3.6.3.14) (F-ATPase subunit beta) (ATP synthase F1 sector subunit beta) (460 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPD_ECOLI P0ABA4 ATP synthase subunit delta (ATP synthase F(1) sector subunit delta) (F-type ATPase subunit delta) (F-ATPase subunit delta) (177 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPE_ECOLI P0A6E6 ATP synthase epsilon chain (ATP synthase F1 sector epsilon subunit) (F-ATPase epsilon subunit) (139 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 8/17 (47%) Frame = +1 Query: 49 GMIRIVKQHGHEEFIYL 65 GM+ + GH F + Sbjct: 6670 GMVTFLDTPGHAAFTSM 6720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPF_ECOLI P0ABA0 ATP synthase subunit b (ATP synthase F(0) sector subunit b) (F-type ATPase subunit b) (F-ATPase subunit b) (ATPase subunit I) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.94 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.94, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 20/31 (64%) Frame = +1 Query: 67 KAKAEAQVIIEQANKRRSQILDEAKAEAEQE 97 KAK E +EQ K+ ++ ++AK+E+ +E Sbjct: 5695 KAKTEQAKQVEQVEKKPAKAEEQAKSESAKE 5787 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +3 Query: 19 LFCMKYV 25 +FCM+YV Sbjct: 4413 VFCMRYV 4433 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPG_ECOLI P0ABA6 ATP synthase gamma chain (ATP synthase F1 sector gamma subunit) (F-ATPase gamma subunit) (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.024 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.024, Method: Compositional matrix adjust. Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 12/89 (13%) Frame = +2 Query: 1 MAGAKEIRSKIASVQNTQKITKAMEMVAASKMRKSQDRMAASRPYAETMRKVIGHLA--- 57 + G +IRS + QNT KI + +E V A++ + R+ PYA +++ LA Sbjct: 1109 IEGLDKIRSNSNNAQNTDKIGR-LE-VQAARDDSALPRLIVRAPYAIVWQRLPPALAKIG 1282 Query: 58 ---------HGNLEYKHPYLEDRDVKRVG 77 GN+ + + RD +G Sbjct: 1283 MTVTKRDRQQGNIAVTYSPINSRDWDALG 1369 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = +2 Query: 202 KSWDYLYEPDPK 213 + WD L DPK Sbjct: 1349 RDWDALGAQDPK 1384 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = +1 Query: 52 VIGHLAHG 59 ++GH+ HG Sbjct: 6544 IMGHVDHG 6567 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 11/21 (52%) Frame = +2 Query: 16 NTQKITKAMEMVAASKMRKSQ 36 TQK K S++RKSQ Sbjct: 5684 RTQKKLKQSRQSRLSRLRKSQ 5746 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPL_ECOLI P68699 ATP synthase subunit c (ATP synthase F(0) sector subunit c) (F-type ATPase subunit c) (F-ATPase subunit c) (Lipid-binding protein) (Dicyclohexylcarbodiimide-binding protein) (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATPZ_ECOLI P0ABC0 ATP synthase protein I (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.59 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.59, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 12/16 (75%) Frame = -3 Query: 4 SLVSRNVARKLLLVQL 19 SL+ +A+ LLLVQL Sbjct: 4277 SLLVHEIAQSLLLVQL 4230 Score = 16.9 bits (32), Expect = 1.9, Method: Composition-based stats. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +3 Query: 40 AISGGLAVFLPN 51 AIS GLA+ N Sbjct: 5328 AISAGLAIMRNN 5363 Score = 16.5 bits (31), Expect = 2.6, Method: Composition-based stats. Identities = 4/17 (23%), Positives = 9/17 (52%) Frame = +1 Query: 57 FAWRHQAHTPAKGRVAW 73 F W +AH ++++ Sbjct: 2023 FGWASEAHLAQMKKLSY 2073 Score = 15.4 bits (28), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -2 Query: 108 WVLVLVVQILAPAVIN 123 + L QIL A+IN Sbjct: 5358 YALSPNQQILRAAIIN 5311 Score = 15.0 bits (27), Expect = 8.0, Method: Composition-based stats. Identities = 8/27 (29%), Positives = 13/27 (48%) Frame = -1 Query: 14 LLLVQLLVVIASGLLFSLKDPFWGVSA 40 LLL L+ G +F PF+ + + Sbjct: 997 LLLHTNLITACKGDIFIGSVPFYPIGS 917 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ATZN_ECOLI P37617 Lead, cadmium, zinc and mercury-transporting ATPase (3.6.3.3) (3.6.3.5) (732 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -3 Query: 542 VVLVVRNDDVLGVIALQDTL 561 + + NDD + +L DTL Sbjct: 3761 IFSIYSNDDHFSIDSLDDTL 3702 Score = 19.2 bits (38), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 578 KGVILTGDNP 587 K +TGDNP Sbjct: 634 KAQCITGDNP 663 Score = 17.7 bits (34), Expect = 7.3, Method: Compositional matrix adjust. Identities = 11/24 (45%), Positives = 12/24 (50%) Frame = +1 Query: 527 AFTGLINELESAGQTVVLVVRNDD 550 AFT + A VVLVV DD Sbjct: 6706 AFTSMRARGAQATDIVVLVVAADD 6777 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AVTA_ECOLI P09053 Valine--pyruvate aminotransferase (2.6.1.66) (Alanine--valine transaminase) (Transaminase C) (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%), Gaps = 5/18 (27%) Frame = -1 Query: 372 FFPGLD-----KPWPHTH 384 +FPG D +PW H H Sbjct: 6133 YFPGCDYGDLLQPWHHFH 6080 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = +1 Query: 397 KIEAGVKILAEEIERAWAESH 417 KIE K +AEE + AE+ Sbjct: 5932 KIEEDAKRVAEEARKMAAENE 5994 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 8 DKFTRHSGITL 18 +FTRHS I + Sbjct: 6522 SRFTRHSHIAI 6490 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AZOR_ECOLI P41407 FMN-dependent NADH-azoreductase (1.7.-.-) (FMN-dependent NADH-azo compound oxidoreductase) (Azo-dye reductase) (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.41, Method: Compositional matrix adjust. Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 10/55 (18%) Frame = -2 Query: 48 IPVLDGELV----------GALRPSDAPLTPRQQEALALSDELIAELKAHDVIVI 92 +P +G ++ GALR + +PLT R S E A +H ++I Sbjct: 681 VPCCNGRIIPCDALSLFSAGALR*ASSPLTWRL*RC---SVEQAANNISHKTLII 526 Score = 16.9 bits (32), Expect = 3.7, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 14/31 (45%) Frame = +2 Query: 127 EGLVTGKKAIVITSRGGIHKDGPTDLVTPYL 157 + TGK SRG I+ P + T YL Sbjct: 3392 DNFSTGKSLGTQISRGRIYSRAP--IHTAYL 3478 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= AZUC_ECOLI C1P605 Uncharacterized protein azuC (28 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BAER_ECOLI P69228 Transcriptional regulatory protein baeR (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.25 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.25, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = +1 Query: 168 LLKTLSHEPGKV 179 LL L HEPG+V Sbjct: 5515 LLAHLKHEPGQV 5550 Score = 18.9 bits (37), Expect = 0.95, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 172 LSHEPGKVFSREQL 185 L PG++FSR + Sbjct: 4410 LMRSPGRMFSRGSI 4369 Score = 16.5 bits (31), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 12/26 (46%) Frame = +1 Query: 23 GQLLIDYLRAASYAPTLISHGDQVLP 48 G +L+D+ I+ GD+ P Sbjct: 2113 GLILVDFKLEFGLFENKITLGDEFSP 2190 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BAES_ECOLI P30847 Signal transduction histidine-protein kinase baeS (2.7.13.3) (467 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 12/26 (46%) Frame = +1 Query: 434 VEAHNGRIIAAHSPFGGVSITVELPL 459 +EAHN P G + T+ + L Sbjct: 2455 IEAHNKEHFLCGDPIGRIGTTMYVTL 2532 Score = 17.3 bits (33), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = +1 Query: 148 VERLTRNTDINFDKQQ 163 + L R TDI+FD ++ Sbjct: 3172 IRYLER*TDIDFDLKK 3219 Score = 17.3 bits (33), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -1 Query: 4 WRPGI 8 WRPGI Sbjct: 3460 WRPGI 3446 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BARA_ECOLI P0AEC5 Signal transduction histidine-protein kinase barA (2.7.13.3) (918 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.4, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 17/34 (50%) Frame = +1 Query: 813 QLALRQAAGKTDLARDMLQMLLDFLPEVRNKVEE 846 +L +Q + KT + ++ EVR K+EE Sbjct: 5842 KLTTQQQSDKTRREAEAAELKRSVEREVRRKIEE 5943 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BASR_ECOLI P30843 Transcriptional regulatory protein basR (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 12/34 (35%) Frame = -3 Query: 123 GESELIVGNLTLNMGRRQVWMGGEELILTPKEYA 156 G S L++ T WM +TP A Sbjct: 6866 GLSILLITTTTGTFAALACWMASIVCGMTPSSAA 6765 Score = 15.8 bits (29), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = +2 Query: 41 EAGHYSLVVLDLGLPDEDGL 60 + +LVV LGL ++ + Sbjct: 995 QGNQLALVVKSLGLQQQEKM 1054 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BASS_ECOLI P30844 Sensor protein basS (2.7.13.3) (363 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 3/20 (15%) Frame = +2 Query: 17 TIGAIL---LVFELISVFWL 33 I AIL ++ ++ISV WL Sbjct: 488 NIMAILQKSVMIKIISVLWL 547 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BAX_ECOLI P27297 Protein bax (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +2 Query: 90 SQNAAITAERNWLISK 105 S I +RNWL+ K Sbjct: 6386 STRLLIRKQRNWLLKK 6433 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 65 PDLRKYPSG 73 PDL + PSG Sbjct: 3137 PDLNQRPSG 3111 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 10/15 (66%) Frame = -1 Query: 26 LAKTHTTTASQKSHL 40 + + H TT ++ +HL Sbjct: 1453 IGELHATTVAKITHL 1409 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BCCP_ECOLI P0ABD8 Biotin carboxyl carrier protein of acetyl-CoA carboxylase (BCCP) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BCP_ECOLI P0AE52 Putative peroxiredoxin bcp (1.11.1.15) (Thioredoxin reductase) (Bacterioferritin comigratory protein) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.59 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.59, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 16 PDQDGEQVNLTDF 28 P+ EQ+ LTD+ Sbjct: 6004 PEPIAEQIELTDY 6042 Score = 17.3 bits (33), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -3 Query: 124 FLIDADGKIEHVFDD 138 FL+ GK++ F D Sbjct: 4517 FLVLQCGKVQSAFQD 4473 Score = 15.8 bits (29), Expect = 5.7, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = +3 Query: 26 TDFQGQRV 33 TD+ G+R+ Sbjct: 3636 TDYLGERI 3659 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BCR_ECOLI P28246 Bicyclomycin resistance protein (Sulfonamide resistance protein) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 1/38 (2%) Frame = +3 Query: 128 PKEEFSRMMSFVMLVTTIAPLMAP-IVGGWVLVWLSWH 164 P++ ++ + ++ + P +VG W + WL H Sbjct: 3942 PRKNMNKKLKSGLISIEKQEISRPSVVGKWSVKWLCQH 4055 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 194 RQPFHIR 200 R PFH+R Sbjct: 3882 RNPFHVR 3902 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BCSA_ECOLI P37653 Cellulose synthase catalytic subunit [UDP-forming] (2.4.1.12) (872 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.15 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.15, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 17/39 (43%) Frame = +2 Query: 36 LGCFWMILAWIFIPLEHPRWQRIRAEHKNLYPHINASRP 74 + CFWM++ +F W + A + P + S P Sbjct: 3023 IACFWMMINVLFATFSDAGWSSLVARRAH-NPKVAGSNP 3136 Score = 19.2 bits (38), Expect = 3.8, Method: Composition-based stats. Identities = 11/26 (42%), Positives = 14/26 (53%) Frame = +2 Query: 558 PALMIALFVLPHMIHASLTNSKIQGK 583 PAL+I LF M+ L K +GK Sbjct: 119 PALVIILFC*AVMMRQVLILYKKEGK 196 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BCSB_ECOLI P37652 Cyclic di-GMP-binding protein (Cellulose synthase regulatory subunit) (Precursor) (779 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.2, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = -2 Query: 436 QFLQSFNLSSKQEANRLLLRIP 457 F FN+ + N LLR+P Sbjct: 1488 SFCC*FNVCPLESVNCTLLRLP 1423 Score = 18.1 bits (35), Expect = 6.2, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 19/41 (46%) Frame = -3 Query: 8 ICAVAMGMSAFPSFMTQATPATQPLINAEPAVAAQTEQNPQ 48 IC+ AMG PSF A+ A ++ +T ++ + Sbjct: 6026 ICS-AMGSGHLPSFSAAILRASSATRFASSSILRRTSRSTE 5907 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BCSC_ECOLI P37650 Cellulose synthase operon protein C (1140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.093 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.093, Method: Compositional matrix adjust. Identities = 14/38 (36%), Positives = 26/38 (68%), Gaps = 5/38 (13%) Frame = +1 Query: 428 SASQRRSID-DIERSLQND--RLAQQAE--ALENQGKW 460 +A +RS++ ++ R ++ D R+A++A A EN+GKW Sbjct: 5890 AAELKRSVEREVRRKIEEDAKRVAEEARKMAAENEGKW 6003 Score = 23.1 bits (48), Expect = 0.30, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%) Frame = -3 Query: 616 EPANADAILGL-TEVDIAAGDKAAARSQLAKLPAT 649 +PA+A+ + TEV+I+A S + LPAT Sbjct: 5468 KPASANCCMRRSTEVEISAASNFMVTSVMLFLPAT 5364 Score = 18.5 bits (36), Expect = 7.0, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +2 Query: 313 LALDPHSSNNDKWNSLLKVNRYW 335 L + PH KWN + ++W Sbjct: 1793 LRVSPH-----KWNDCFQTTKHW 1846 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BDM_ECOLI P76127 Protein bdm (Biofilm-dependent modulation protein) (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 7.8, Method: Composition-based stats. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = +1 Query: 26 AQHGVVTEDD 35 +QH ED+ Sbjct: 6055 SQHARAAEDE 6084 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BETA_ECOLI P17444 Choline dehydrogenase (CHD) (CDH) (1.1.99.1) (556 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BETB_ECOLI P17445 Betaine aldehyde dehydrogenase (BADH) (1.2.1.8) (490 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.20, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 14/28 (50%) Frame = +2 Query: 156 IQIALWKSAPALAAGNAMIFKPSEVTPL 183 I I LW PA NAM P+EV + Sbjct: 4682 IDIVLWDDNPAQFVLNAM--APAEVASI 4759 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 369 VAPTVFTDCSDDMTI 383 VA T+F CS + +I Sbjct: 4293 VAVTIFPSCSRNCSI 4249 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BETI_ECOLI P17446 HTH-type transcriptional regulator betI (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BETT_ECOLI P0ABC9 High-affinity choline transport protein (677 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 6.2, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = -2 Query: 420 FYVTSADSGALVLGNFTSQLK 440 F V+ D+G + L F QLK Sbjct: 2019 FTVSLTDNGIVQLIIFQKQLK 1957 Score = 18.1 bits (35), Expect = 6.5, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = -3 Query: 353 GTLIIPFTFTLLWLSVFGNSAL 374 T F ++L SVF +SAL Sbjct: 5735 STCSTCFACSVLAFSVFASSAL 5670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BFD_ECOLI P0AE56 Bacterioferritin-associated ferredoxin (64 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BFR_ECOLI P0ABD3 Bacterioferritin (BFR) (Cytochrome b-1) (Cytochrome b-557) (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.1, Method: Compositional matrix adjust. Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 3/81 (3%) Frame = +2 Query: 75 GKLNIGEDVEEMLRSDLALELDGAKNLREAIGYADSVHDYVSRDMMIEILRDEEGHIDWL 134 G L + + V E+LR ++ LR +G S H R +L+ + + L Sbjct: 6698 GMLRLHQCVHEVLRQ----QISWFWLLRPMMG---SCHR---RSRPSNMLKQRKSPLSLL 6847 Query: 135 ETE---LDLIQKMGLQNYLQA 152 T+ LIQ + QNYL Sbjct: 6848 STK*INQTLIQSVLEQNYLST 6910 Score = 16.2 bits (30), Expect = 4.1, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 12/26 (46%) Frame = -1 Query: 11 LNKLLGNELVAINQYFLHARMFKNWG 36 KLL + YFL+ +F+ G Sbjct: 4267 FTKLLNHYCSFSFAYFLYNNLFRCLG 4190 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGA2_ECOLI P06864 Evolved beta-galactosidase subunit alpha (Beta-gal) (3.2.1.23) (Lactase) (1030 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.97 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.97, Method: Composition-based stats. Identities = 4/12 (33%), Positives = 10/12 (83%) Frame = +1 Query: 283 PQQWSAESPYLY 294 P++W +SP+++ Sbjct: 6919 PEEWGGDSPFVH 6954 Score = 20.8 bits (42), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -2 Query: 375 AHYPNDPRFYELCDIYGLFV 394 A N PRF+ +C G F+ Sbjct: 6216 AFTANSPRFFTICF*LGEFI 6157 Score = 19.6 bits (39), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = +3 Query: 712 NNARPLTLEDD 722 NN+R LTL DD Sbjct: 378 NNSRNLTLTDD 410 Score = 19.2 bits (38), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +2 Query: 152 KGSRLTAEFDISAMV 166 KGSR+ + DIS ++ Sbjct: 767 KGSRIESTADISKLL 811 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGAL_ECOLI P00722 Beta-galactosidase (Beta-gal) (3.2.1.23) (Lactase) (1024 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = -2 Query: 819 AEAALLQCTADTLADAVLITTA 840 A + L+ C A ++ V ITT+ Sbjct: 4101 ASSLLISCAASSVISRVGITTS 4036 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGLA_ECOLI Q46829 6-phospho-beta-glucosidase bglA (3.2.1.86) (479 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGLB_ECOLI P11988 6-phospho-beta-glucosidase bglB (3.2.1.86) (470 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +1 Query: 107 DRLFDEMAQAGIKPLVTLS 125 DRL + A AG+K T S Sbjct: 5434 DRLIQQFADAGLKKSETSS 5490 Score = 16.9 bits (32), Expect = 9.6, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 10/12 (83%), Gaps = 1/12 (8%) Frame = -2 Query: 427 FIY-VDRDDNGE 437 FIY VD +DNG+ Sbjct: 6864 FIYFVDNNDNGD 6829 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGLG_ECOLI P11989 Cryptic beta-glucoside bgl operon antiterminator (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.019 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.019, Method: Compositional matrix adjust. Identities = 22/72 (30%), Positives = 33/72 (45%) Frame = -3 Query: 100 DHCQFAIKRFQQNVLLPNPLLWDIQRLYPKEFQLGEEALTIIDKRLGVQLPKDEVGFIAM 159 D+C I +QQ L NPL+ + R+ +L E LT+ + L V L + + Sbjct: 824 DYCLTIIY*YQQWTLSGNPLI--VPRV-----ELVAECLTVCQRHLAVILAQ----YRKF 678 Query: 160 HLVSAQMSGNME 171 H V A +S M Sbjct: 677 HAVMAGLSPVMH 642 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +1 Query: 18 DDQQREKVVMGRGI 31 DDQ+ V GRG+ Sbjct: 3040 DDQRTICYVFGRGM 3081 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGLH_ECOLI P26218 Cryptic outer membrane porin bglH (Precursor) (538 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +2 Query: 196 WFGDNA 201 WFGDNA Sbjct: 5339 WFGDNA 5356 Score = 18.9 bits (37), Expect = 2.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 10/11 (90%) Frame = +1 Query: 332 NGYYDWKDTWM 342 NGY++++DT + Sbjct: 1051 NGYFEYRDTTL 1083 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGLJ_ECOLI P39404 Transcriptional activator protein bglJ (175 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGLR_ECOLI P05804 Beta-glucuronidase (GUS) (3.2.1.31) (Beta-D-glucuronoside glucuronosohydrolase) (603 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.63, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 16/25 (64%) Frame = -3 Query: 558 QGILRVGGNKKGIFTRDRKPKSAAF 582 QGI + G + F+ ++KP+++ F Sbjct: 3353 QGIKKKGLIAQSFFSNNKKPRNSGF 3279 Score = 20.8 bits (42), Expect = 0.71, Method: Compositional matrix adjust. Identities = 24/108 (22%), Positives = 44/108 (40%), Gaps = 8/108 (7%) Frame = +1 Query: 410 IANEPDTRPQGAREYFAPLAEATRKLD-PTRPITCVNVMFCDAHTDTISDLFDVLCLNRY 468 + +P + A+ A A A + D ++PI + +D + L R Sbjct: 5731 VEKKPAKAEEQAKSESAKEANAKKIADTKSKPIVEKKKLTTQQQSDKTRREAEAAELKRS 5910 Query: 469 YGWYVQSGDLETAEKVLE--KELLA-----WQEKLHQPIIITEYGVDT 509 V+ E A++V E +++ A W E + + I +T+Y V T Sbjct: 5911 VEREVRRKIEEDAKRVAEEARKMAAENEGKWPEPIAEQIELTDYHVTT 6054 Score = 19.2 bits (38), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +1 Query: 488 ELLAWQEKLHQPIIITEY 505 EL ++LH PI+ Y Sbjct: 1960 ELFLKNDQLHDPIVSEAY 2013 Score = 18.1 bits (35), Expect = 4.5, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 5/27 (18%) Frame = +2 Query: 129 RITVCVNNELNWQTIPP-----GMVIT 150 R+ V + WQ +PP GM +T Sbjct: 1214 RLIVRAPYAIVWQRLPPALAKIGMTVT 1294 Score = 17.3 bits (33), Expect = 9.2, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 15/33 (45%) Frame = -3 Query: 91 VTHYGKVWVNNQEVMEHQGGYTPFEADVTPYVI 123 V+H + +Q V H+ Y P + + Y + Sbjct: 4430 VSHTKYL*CGHQGVCFHEAAYPPVQLFLRRYYL 4332 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BGLX_ECOLI P33363 Periplasmic beta-glucosidase (3.2.1.21) (Gentiobiase) (Cellobiase) (Beta-D-glucoside glucohydrolase) (Precursor) (765 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.1, Method: Composition-based stats. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = -2 Query: 166 RWGRASEGFGEDTYLTSTMGKTM 188 +WG +S F +DT L KT+ Sbjct: 6948 KWGISSPLFWQDTVLR*FCSKTL 6880 Score = 18.5 bits (36), Expect = 4.4, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 20/41 (48%) Frame = +2 Query: 452 ENGKVLYAKGANVTSDKGIIDFLNQYEEAVKVDPRSPQEMI 492 + GK++ A V+ + I+D N E + + P+E I Sbjct: 4268 QEGKIVTATVKKVSRESIILDLGNNAEGIIGQEDMLPRENI 4390 Score = 18.5 bits (36), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +1 Query: 342 LDDAARHVLNVKYDMGLFND 361 DDA +++ K + GLF + Sbjct: 2101 FDDAGLILVDFKLEFGLFEN 2160 Score = 18.1 bits (35), Expect = 6.4, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = +3 Query: 399 KNRLETLPLKKSATIAV 415 K +L LPLKKS A+ Sbjct: 4272 KGKLLQLPLKKSVERAL 4322 Score = 17.7 bits (34), Expect = 7.8, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 8/9 (88%) Frame = +3 Query: 1 MKWLCSVGI 9 ++W CS+G+ Sbjct: 2958 LRW*CSIGL 2984 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BHSA_ECOLI P0AB40 Multiple stress resistance protein bhsA (Precursor) (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +1 Query: 57 KADEMGAKSFRITSVTGPNTLH 78 KAD A++ S P+TL Sbjct: 6175 KADREEARAVGRKSKRKPSTLQ 6240 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BICB_ECOLI P28247 Putative uncharacterized protein bicB (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/32 (21%), Positives = 13/32 (40%) Frame = -3 Query: 9 VRPLTIISHQHQTGGINIQPPRRMQFPRYRFI 40 + P+ + H + + QFP RF+ Sbjct: 5129 LEPMWSVHSGHDHAALEASFCQNYQFPVIRFL 5034 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 14/29 (48%) Frame = +2 Query: 127 HVCDFACKNGGRALTRKSELLSAQYSGLI 155 +VC RA +++ LS Q GLI Sbjct: 3509 YVCRC*LPGECRARC*RADYLSLQLRGLI 3595 Score = 15.0 bits (27), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 10/19 (52%) Frame = -1 Query: 1 MMARRSNAVRPLTIISHQH 19 ++ SNAV + + QH Sbjct: 4426 LIQNTSNAVTRAYVFTRQH 4370 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIOA_ECOLI P12995 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (2.6.1.62) (7,8-diamino-pelargonic acid aminotransferase) (DAPA aminotransferase) (DAPA AT) (Diaminopelargonic acid synthase) (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.78, Method: Compositional matrix adjust. Identities = 13/57 (22%), Positives = 25/57 (43%) Frame = +3 Query: 193 GFARLMAAHRHEIAAVIIEPIVQGAGGMRMYHPEWLKRIRKICDREGILLIADEIAT 249 + +L+ + + +I P RMY P WL + +K +L+I + + T Sbjct: 5043 NYRKLIVLTKRGFKSCVIVP--------RMY*PHWL*KKKK------VLVITNPLTT 5171 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 165 WKGYLPENLF 174 WKG+L N F Sbjct: 3895 WKGFLIRNGF 3866 Score = 16.5 bits (31), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 265 IAPDILC 271 I+PD+LC Sbjct: 6651 ISPDMLC 6631 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIOB_ECOLI P12996 Biotin synthase (2.8.1.6) (Biotin synthetase) (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.0, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 15/30 (50%) Frame = +1 Query: 176 TLEKVRDAGIKVCSGGIVGLGETVKDRAGL 205 TLEK+ + GG++ E V R G+ Sbjct: 2218 TLEKMDKDRFRGNLGGVIEAYEQVAKRIGV 2307 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 251 RIMMPTSY 258 R+M PTSY Sbjct: 3115 RVMSPTSY 3092 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIOC_ECOLI P12999 Biotin synthesis protein bioC (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 97 LPLATATFDLA 107 LPL T+D+A Sbjct: 662 LPLQHGTYDIA 694 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIOD2_ECOLI P0A6E9 Putative dethiobiotin synthetase (Dethiobiotin synthase) (DTB synthetase) (DTBS) (6.3.3.3) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -3 Query: 147 GCINHALLT 155 GC NH L T Sbjct: 1430 GCQNHPLAT 1404 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIOD_ECOLI P13000 Dethiobiotin synthetase (6.3.3.3) (Dethiobiotin synthase) (DTB synthetase) (DTBS) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.0, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = -3 Query: 196 IPAPLLGEIPWLAENPENAA 215 IP P L + E+P +++ Sbjct: 6980 IPVPFLADT*TNGESPPHSS 6921 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIOF_ECOLI P12998 8-amino-7-oxononanoate synthase (AONS) (2.3.1.47) (8-amino-7-ketopelargonate synthase) (7-keto-8-amino-pelargonic acid synthetase) (7-KAP synthetase) (L-alanine--pimeloyl-CoA ligase) (384 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +2 Query: 336 EKLRQQGCWVTAIRP 350 E LRQQ W +RP Sbjct: 6728 EVLRQQISWFWLLRP 6772 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = +1 Query: 266 TSMPPAQAQALRASLAVIRSDEG 288 TSM AQA + V+ +D+G Sbjct: 6712 TSMRARGAQATDIVVLVVAADDG 6780 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIOH_ECOLI P13001 Carboxylesterase bioH (3.1.1.1) (Biotin synthesis protein bioH) (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 11/22 (50%) Frame = -1 Query: 6 WQTKGQGNVHLVLLHGWGLNAE 27 W T + N + ++ W NAE Sbjct: 4561 WVTNCRLNFDQLFVNFWYFNAE 4496 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -2 Query: 191 PLQNVSMPFLRL 202 PL++V+ LRL Sbjct: 1461 PLESVNCTLLRL 1426 Score = 16.2 bits (30), Expect = 7.7, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +2 Query: 184 KTVDLRQPLQNVSMPFLRLYG 204 K +D+R P+Q P + L G Sbjct: 722 KQLDIRPPIQ----PLVLLKG 772 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BIRA_ECOLI P06709 Bifunctional protein birA (Biotin operon repressor) (Biotin--[acetyl-CoA-carboxylase] synthetase) (6.3.4.15) (Biotin--protein ligase) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 2/31 (6%) Frame = -2 Query: 141 QGPAAAIGLSLVIGIVMAEVLRKL--GADKV 169 PAA +S +GI+ + G+D V Sbjct: 6132 TSPAATTAISFNLGIIFIFCCPSVL*GSDMV 6040 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 259 APYLSRWEKL 268 APY W++L Sbjct: 1229 APYAIVWQRL 1258 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BISC_ECOLI P20099 Biotin sulfoxide reductase (1.-.-.-) (BDS reductase) (BSO reductase) (777 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.66, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -3 Query: 710 ICIHEGAWPDLDL 722 +C HE A+P + L Sbjct: 4391 VCFHEAAYPPVQL 4353 Score = 19.6 bits (39), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 137 AGGYTGHLGDY 147 AGG T H+G Y Sbjct: 6619 AGGITQHIGAY 6651 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BLC_ECOLI P0A901 Outer membrane lipoprotein blc (Precursor) (177 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BLR_ECOLI P56976 Beta-lactam resistance protein (41 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BOLA_ECOLI P0ABE2 Protein bolA (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.6, Method: Composition-based stats. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = +1 Query: 22 VVDESYRHNVPAGSESHF 39 +V E+Y SE+H Sbjct: 1996 IVSEAYCKAFGWASEAHL 2049 Score = 14.2 bits (25), Expect = 9.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 15 FQPVFLEVV 23 + +FLEVV Sbjct: 3171 LKKIFLEVV 3145 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BORD_ECOLI P77330 Lipoprotein bor homolog from lambdoid prophage DLP12 (Precursor) (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.0, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = +1 Query: 82 TLGIYTPLEARVYC 95 TLG RV+C Sbjct: 751 TLGTIKGFPDRVHC 792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BRNQ_ECOLI P0AD99 Branched-chain amino acid transport system 2 carrier protein (LIV-II) (439 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BSSR_ECOLI P0AAY1 Biofilm regulator bssR (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.4, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 40 NHLRDNFFKL 49 NH NFF++ Sbjct: 3145 NHF*KNFFQI 3174 Score = 15.0 bits (27), Expect = 7.0, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -1 Query: 40 NHLRDNF 46 NH D+F Sbjct: 4045 NHFTDHF 4025 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BSSS_ECOLI P0AB33 Biofilm regulator bssS (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BTUB_ECOLI P06129 Vitamin B12 transporter btuB (Cobalamin receptor) (Outer membrane cobalamin translocator) (Precursor) (614 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.4, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 12/24 (50%) Frame = +2 Query: 545 TRYDKDYSSYPYQTVKMGGVSLWD 568 Y K+Y S P Q G V+ WD Sbjct: 305 CHYIKNYLSKPIQLPLSGLVNDWD 376 Score = 19.2 bits (38), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = -3 Query: 10 ACSVTAFSAWAQD 22 ACSV AFS +A Sbjct: 5714 ACSVLAFSVFASS 5676 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BTUC_ECOLI P06609 Vitamin B12 import system permease protein btuC (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.80, Method: Compositional matrix adjust. Identities = 10/42 (23%), Positives = 17/42 (40%) Frame = -2 Query: 204 ICCQSRPMNMLALGEISARQLGLPLWFWRNVLVAATGWMVGV 245 +C ++ L+L I+AR FWR W+ + Sbjct: 2877 LCSDTKISTSLSLRNIAAR-------FWRRAYFLIFSWLTQI 2773 Score = 16.2 bits (30), Expect = 9.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 207 QSRPMNMLA 215 +SRP NML Sbjct: 6794 RSRPSNMLK 6820 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BTUD_ECOLI P06611 Vitamin B12 import ATP-binding protein btuD (3.6.3.33) (Vitamin B12-transporting ATPase) (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BTUE_ECOLI P06610 Vitamin B12 transport periplasmic protein btuE (1.-.-.-) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.39, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = +3 Query: 74 GSDEEIKTYCTTTWG 88 G E + C T+WG Sbjct: 4629 GCGEHVFKLCLTSWG 4673 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 87 WGVTFPMF 94 WG++ P+F Sbjct: 6945 WGISSPLF 6922 Score = 15.8 bits (29), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 80 KTYCTTT 86 +TYCT+T Sbjct: 1213 QTYCTST 1233 Score = 15.4 bits (28), Expect = 8.0, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 37 CGLTPQ 42 CG+TP Sbjct: 6791 CGMTPS 6774 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BTUF_ECOLI P37028 Vitamin B12-binding protein (Precursor) (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 70 NLERIVALKPDL 81 NLER+ +KP + Sbjct: 91 NLERLSMIKPSV 126 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -2 Query: 239 LTSDWFERASPRI 251 L ++W RAS RI Sbjct: 4464 LINNWGPRASGRI 4426 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= BTUR_ECOLI P0A9H5 Cob(I)yrinic acid a,c-diamide adenosyltransferase (2.5.1.17) (Cob(I)alamin adenosyltransferase) (Corrinoid adenosyltransferase) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= C561_ECOLI P0ABE5 Cytochrome b561 (Cytochrome b-561) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.9, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 171 MPRKRS 176 +PRKRS Sbjct: 2255 LPRKRS 2238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= C56H_ECOLI P76345 Cytochrome b561 homolog 1 (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.82 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.82, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +2 Query: 19 VAITYAAMELRGW 31 +A+TY+ + R W Sbjct: 1319 IAVTYSPINSRDW 1357 Score = 16.2 bits (30), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 12 HWITLLFVAI 21 WI + FVAI Sbjct: 2228 RWIKIAFVAI 2257 Score = 15.4 bits (28), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 158 FHHYIQKDNTLL 169 FHH +DN L Sbjct: 2940 FHHLGIEDNIFL 2905 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= C56I_ECOLI P75925 Cytochrome b561 homolog 2 (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAAL_ECOLI P77213 Carboxylate-amine ligase ybdK (6.3.-.-) (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CADB_ECOLI P0AAE8 Probable cadaverine/lysine antiporter (444 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CADC_ECOLI P23890 Transcriptional activator cadC (512 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +2 Query: 126 AVPATDSPSHSLNIQ 140 +V TDS H+LN Q Sbjct: 1436 SVQFTDSKGHTLNQQ 1480 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAIA_ECOLI P60584 Crotonobetainyl-CoA dehydrogenase (1.3.99.-) (Crotonobetainyl-CoA reductase) (380 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +2 Query: 188 SKPGIKVTKLEKLGLRMD 205 SKPG + K+ LRM+ Sbjct: 3791 SKPGTPLLKI*TRQLRMN 3844 Score = 16.5 bits (31), Expect = 10.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 198 EKLGLRMDSC 207 EKL + D C Sbjct: 4859 EKLSVHFDHC 4830 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAIB_ECOLI P31572 Crotonobetainyl-CoA:carnitine CoA-transferase (2.8.3.-) (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -3 Query: 115 NPKLVIAHLSGFG 127 NP + AHL+ G Sbjct: 377 NPSRLQAHLTAIG 339 Score = 16.5 bits (31), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -1 Query: 146 AFSGYLIQNG 155 + G+LI+NG Sbjct: 3898 TWKGFLIRNG 3869 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAIC_ECOLI P31552 Probable crotonobetaine/carnitine-CoA ligase (6.2.1.-) (517 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +3 Query: 483 FCEQNMAKFKVPSYL 497 FC + + K +VP+YL Sbjct: 4416 FCMRYVLKHEVPNYL 4460 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAID_ECOLI P31551 Carnitinyl-CoA dehydratase (4.2.1.-) (Crotonobetainyl-CoA hydratase) (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAIE_ECOLI P39206 Carnitine operon protein caiE (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 12/22 (54%) Frame = -1 Query: 39 PLASLRGDYGRLIVQAGANIQD 60 P++ L YG L+V ++Q Sbjct: 5956 PVSRLLLSYGALLVLQNVSVQP 5891 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -3 Query: 163 VGRCHVSLHETQP 175 + RC+VSL T P Sbjct: 5579 IFRCNVSLFGT*P 5541 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 21/114 (18%), Positives = 36/114 (31%), Gaps = 41/114 (35%) Frame = +1 Query: 11 PVVHPTAFVHPSAVLIGDVIVGAGVYIGPLASLRGDYGRLIVQAGANIQDGCIMHGYCDT 70 P +F P AV+ DVI+G V + LA+ G +++ + ++ D Sbjct: 6226 PSTLQQSFNKPVAVVNRDVIIGETVTVAELANKMAVKGSQVIKTMMKLGGMATINQVIDQ 6405 Query: 71 DT-------------------------------IVGEN----------GHIGHG 83 +T + GE+ GH+ HG Sbjct: 6406 ETAQLVAEEMGHKVILRRENELEEALMSDRDMGVAGESALRAPVVTIMGHVDHG 6567 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAIF_ECOLI P0AE58 Transcriptional activatory protein caiF (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 52 VTEISCEVKM 61 V ++SC VKM Sbjct: 6437 VIKLSCVVKM 6466 Score = 15.4 bits (28), Expect = 5.5, Method: Composition-based stats. Identities = 11/37 (29%), Positives = 18/37 (48%) Frame = +1 Query: 48 ILSEVTEISCEVKMIPNKLEGRGCQCQRLVKVVDIDE 84 +LS+ + ++MIP + R LVK + I E Sbjct: 1822 LLSDNEALVKRLEMIPIECVIRNRTAGSLVKRLGITE 1932 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAIT_ECOLI P31553 L-carnitine/gamma-butyrobetaine antiporter (504 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAN_ECOLI P61517 Carbonic anhydrase 2 (4.2.1.1) (Carbonate dehydratase 2) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 15/23 (65%) Frame = +2 Query: 59 ELFVHRNVANLVIHTDLNCLSVV 81 +L +HR A + IH+ LN + VV Sbjct: 2360 KLRLHRLQAFVSIHSVLNSIEVV 2428 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 36 RFLWIGC 42 RF+W GC Sbjct: 2610 RFIWSGC 2630 Score = 16.9 bits (32), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +2 Query: 170 RGQKVTIHGWAYGI 183 R +V + WAYG Sbjct: 2951 RYLEVVVLDWAYGF 2992 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +2 Query: 107 AVENPELGLINNW 119 ++ P GL+N+W Sbjct: 335 PIQLPLSGLVNDW 373 Score = 16.5 bits (31), Expect = 4.4, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -2 Query: 115 LINNW 119 LINNW Sbjct: 4464 LINNW 4450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CAPP_ECOLI P00864 Phosphoenolpyruvate carboxylase (PEPCase) (PEPC) (4.1.1.31) (883 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 10/13 (76%) Frame = -2 Query: 517 VMTQLLNIDWYRG 529 + Q ++++WYRG Sbjct: 3039 IQKQAISMNWYRG 3001 Score = 18.1 bits (35), Expect = 8.4, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -1 Query: 57 LTTLQNLSNDELLP 70 L LQN+S LLP Sbjct: 5923 LLVLQNVSVQPLLP 5882 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CARA_ECOLI P0A6F1 Carbamoyl-phosphate synthase small chain (6.3.5.5) (Carbamoyl-phosphate synthetase glutamine chain) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CARB_ECOLI P00968 Carbamoyl-phosphate synthase large chain (6.3.5.5) (Carbamoyl-phosphate synthetase ammonia chain) (1073 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.89, Method: Composition-based stats. Identities = 14/35 (40%), Positives = 17/35 (48%) Frame = -3 Query: 999 PHIQDRIKNGEYTYIINTTSGRRAIEDSRVIRRSA 1033 P + D NGE +SGR DS V+RRS Sbjct: 6971 PFLADT*TNGESP---PHSSGRIPC*DSSVLRRSG 6876 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CATE_ECOLI P21179 Catalase HPII (1.11.1.6) (Hydroxyperoxidase II) (753 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +1 Query: 130 RGSAAHGYFQ 139 RGSA H YF Sbjct: 4096 RGSAKHAYFH 4125 Score = 18.5 bits (36), Expect = 4.9, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 14/31 (45%) Frame = +2 Query: 469 WPRETPPGPKRGGFESYQERVEGNKVRERSP 499 W R P K G + ++R +GN SP Sbjct: 1247 WQRLPPALAKIGMTVTKRDRQQGNIAVTYSP 1339 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CBL_ECOLI Q47083 HTH-type transcriptional regulator cbl (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 11/23 (47%), Positives = 15/23 (65%), Gaps = 1/23 (4%) Frame = +2 Query: 107 SLPEV-IKAFRELFPEVRLELIQ 128 S PE+ I+ FR PE+ ELI+ Sbjct: 4469 SRPEMLIELFRIEVPEIDEELIE 4537 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -2 Query: 178 LTQISPLT 185 LTQI PLT Sbjct: 2784 LTQIFPLT 2761 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 12/26 (46%) Frame = +1 Query: 33 VSRHIRELEDELGIEIFVRRGKRLLG 58 S+H R EDE ++ R R G Sbjct: 6052 TSQHARAAEDENDAKVEGDRRSRSRG 6129 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CBPA_ECOLI P36659 Curved DNA-binding protein (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = +1 Query: 28 LARKYHPDVSKEP 40 + YH D +EP Sbjct: 841 MVTNYHSDAKREP 879 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CBPM_ECOLI P63264 Chaperone modulatory protein cbpM (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +3 Query: 74 LTLMDDIAH 82 LTL DDIA+ Sbjct: 393 LTLTDDIAN 419 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CBRA_ECOLI P31456 Protein cbrA (CreB-regulated gene A protein) (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = -2 Query: 190 YSCIFDNSITNCYSW 204 + C F + C+SW Sbjct: 5787 FLCTFTFCLLFCFSW 5743 Score = 16.9 bits (32), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -1 Query: 201 CYSWSISKDGYFIF 214 C+S I+ D F+F Sbjct: 3997 CFSIDINPDFNFLF 3956 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CBRB_ECOLI P31468 Inner membrane protein cbrB (CreB-regulated gene B protein) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.9, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 17/36 (47%) Frame = -1 Query: 48 LLLSITTGAIPALLTGVMVACLPEKIGSQKRYRCLA 83 +LLS T + P+ +T ++ I R C+A Sbjct: 3784 ILLSANTSSFPSTVTMIISPSTALMIPCHLRRFCIA 3677 Score = 15.0 bits (27), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 9/21 (42%) Frame = +3 Query: 76 QKRYRCLAGGIGGVVITEIYC 96 +R CL V E++C Sbjct: 4359 DRRICCLVKTYALVTALEVFC 4421 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CBRC_ECOLI P31469 UPF0167 protein cbrC (CreB-regulated gene C protein) (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.19, Method: Compositional matrix adjust. Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 5/44 (11%) Frame = -1 Query: 121 FWLAHCGDFCVFI----GYVGW-NDIKDRLDEFANLEEDCENFG 159 F+ + FCVF+ Y+ W + +K+ L + D F Sbjct: 4804 FFNCYVHRFCVFVNNDRSYLSWRHSVKNELSRIIIPQNDINTFS 4673 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = -3 Query: 56 CPWCIADGSAAEKFAGS 72 CP C AD + E F S Sbjct: 3803 CPVCFADIA*CEHFIFS 3753 Score = 15.8 bits (29), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -2 Query: 13 YHPKPL 18 YH KPL Sbjct: 114 YHAKPL 97 Score = 15.4 bits (28), Expect = 9.9, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 10/26 (38%) Frame = -3 Query: 2 TQNIRPLPQFKYHPKPLETGAFEQDK 27 I P P F KP+ + + K Sbjct: 212 VTEIIPCPPFCIKSKPVASSPLSRIK 135 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCA_ECOLI P06961 Multifunctional CCA protein (CCA-adding enzyme) (2.7.7.25) (2.7.7.21) (tRNA nucleotidyltransferase) (tRNA adenylyl-/cytidylyl-transferase) (tRNA CCA-pyrophosphorylase) (tRNA-NT) (2'-nucleotidase) (3.1.3.-) (2',3'-cyclic phosphodiesterase) (3.1.4.-) (Phosphatase) (3.1.3.-) (412 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.6, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +1 Query: 358 PQGRWLREA 366 P+GRW + Sbjct: 3112 PEGRWFKSG 3138 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +3 Query: 40 QQVGRDFPV 48 ++VGR FP+ Sbjct: 6921 RRVGRRFPI 6947 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCDA_ECOLI P62552 Protein ccdA (Protein letA) (Protein H) (LynA) (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.7, Method: Composition-based stats. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +3 Query: 25 SGLVSTTMQNEARRLRAERWKAE 47 SGL+S Q +R +W + Sbjct: 3972 SGLISIEKQEISRPSVVGKWSVK 4040 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCDB_ECOLI P62554 Cytotoxic protein ccdB (Protein letB) (Protein G) (LynB) (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 6.5, Method: Composition-based stats. Identities = 4/5 (80%), Positives = 5/5 (100%) Frame = +1 Query: 25 IDTPG 29 +DTPG Sbjct: 6685 LDTPG 6699 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCMA_ECOLI P33931 Cytochrome c biogenesis ATP-binding export protein ccmA (3.6.3.41) (Heme exporter protein A) (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -3 Query: 101 HRDGDTAQCLEALAQAGLA 119 H +GD ++ Q GLA Sbjct: 3512 HINGDAIAVIDINTQCGLA 3456 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCMB_ECOLI P0ABL8 Heme exporter protein B (Cytochrome c-type biogenesis protein ccmB) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCMC_ECOLI P0ABM1 Heme exporter protein C (Cytochrome c-type biogenesis protein ccmC) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 2 WKTLHQL 8 W+TLHQ Sbjct: 4982 WRTLHQF 4962 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCMD_ECOLI P0ABM5 Heme exporter protein D (Cytochrome c-type biogenesis protein ccmD) (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 3.5, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 5/8 (62%) Frame = -3 Query: 4 AFASWNEF 11 A WN+F Sbjct: 3464 GLAPWNKF 3441 Score = 14.2 bits (25), Expect = 5.3, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = +3 Query: 16 GYAFFVW 22 GY F+W Sbjct: 2601 GYGRFIW 2621 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCME_ECOLI P69490 Cytochrome c-type biogenesis protein ccmE (Cytochrome c maturation protein E) (Heme chaperone ccmE) (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 9/20 (45%) Frame = -2 Query: 19 LALTIGLVLYALRSNIDLFY 38 LT GLV L LFY Sbjct: 5889 FCLTAGLVTLLLSRQFFLFY 5830 Score = 15.0 bits (27), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = -3 Query: 143 MEANHRRPASV 153 ++ + +RPASV Sbjct: 305 IKRSFKRPASV 273 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCMF_ECOLI P33927 Cytochrome c-type biogenesis protein ccmF (647 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -2 Query: 157 EGRDLNP 163 GRDLNP Sbjct: 3006 RGRDLNP 2986 Score = 18.5 bits (36), Expect = 4.4, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 12/18 (66%) Frame = -1 Query: 120 DIVARVLAIMGMVSVGFL 137 D ++ IMG +++GFL Sbjct: 1981 DHFSKTAQIMGDLALGFL 1928 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CCMH_ECOLI P0ABM9 Cytochrome c-type biogenesis protein ccmH (Precursor) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.89, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%) Frame = -1 Query: 22 VLQFKDEAQEQQFRQLTEELRC 43 VL++KD ++ +TEE RC Sbjct: 2875 VLRYKD-----KY*SITEEYRC 2825 Score = 16.2 bits (30), Expect = 9.9, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 14/28 (50%) Frame = +2 Query: 299 YAFNAFEQQRFGEAVAAWEMMLKLLPAN 326 Y F + + +F E W MM+ +L A Sbjct: 2984 YGFKSRPRYQFIEIACFW-MMINVLFAT 3064 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CDAR_ECOLI P37047 Carbohydrate diacid regulator (Sugar diacid regulator) (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 346 IHRNTLEYRLNR 357 H L+YRLNR Sbjct: 5300 FHHLALQYRLNR 5265 Score = 16.5 bits (31), Expect = 9.0, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 43 RIGELH 48 RIGELH Sbjct: 1456 RIGELH 1439 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CDD_ECOLI P0ABF6 Cytidine deaminase (3.5.4.5) (Cytidine aminohydrolase) (CDA) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CDH_ECOLI P06282 CDP-diacylglycerol pyrophosphatase (3.6.1.26) (CDP-diacylglycerol phosphatidylhydrolase) (CDP-diglyceride hydrolase) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.43, Method: Compositional matrix adjust. Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 1/47 (2%) Frame = -3 Query: 148 PDVRKQLDNNLANISS-RWLPLPGGLRGHEYLARRVTESELVQRSPF 193 P R + NN+ANI+ R + LP L + RV E+ +P Sbjct: 2729 PKTRLTIKNNVANIAVIRVIKLPEPLDPN-----RVEEAPAPNEAPI 2604 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = +3 Query: 150 VRKQLDNNLANISSRWLPL 168 VRK L+ N IS +W+ L Sbjct: 1368 VRKILN*NPVAISCKWVIL 1424 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 4/39 (10%) Frame = -1 Query: 112 SKKYGQPVPDRAVSLAINSRTG----RTQNHFHIHISCI 146 SK Y P + + RTG H+H+ ++C+ Sbjct: 3061 SK*YVDHHPKASYLYELVPRTGFEPVSPIEHYHLKVACL 2945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CDSA_ECOLI P0ABG1 Phosphatidate cytidylyltransferase (2.7.7.41) (CDP-diglyceride pyrophosphorylase) (CDP-diglyceride synthetase) (CDP-diacylglycerol synthase) (CDS) (CTP:phosphatidate cytidylyltransferase) (CDP-DG synthetase) (CDP-DAG synthase) (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 12/25 (48%) Frame = +1 Query: 77 HRNIHQPLVEISLWASLGWWIVALL 101 + +H P+V + + GW A L Sbjct: 1975 NDQLHDPIVSEAYCKAFGWASEAHL 2049 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 128 IVPFFWGMLALR 139 +VPF WG L+ Sbjct: 1822 VVPFVWGYPQLQ 1787 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CEDA_ECOLI P0AE60 Cell division activator cedA (80 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.080 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.080, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +1 Query: 48 LMGESFLRSPAFTV 61 + GES LR+P T+ Sbjct: 6505 VAGESALRAPVVTI 6546 Score = 15.0 bits (27), Expect = 3.5, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -2 Query: 15 YVPRTEPAPPEHAIK 29 +VP +PP H K Sbjct: 3381 FVPTWTNSPPRHKKK 3337 Score = 14.2 bits (25), Expect = 7.3, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -1 Query: 17 PRTEPAPPEH 26 PR+ A P H Sbjct: 6802 PRSSVA*PHH 6773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CFA_ECOLI P0A9H7 Cyclopropane-fatty-acyl-phospholipid synthase (Cyclopropane fatty acid synthase) (CFA synthase) (2.1.1.79) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 5/40 (12%) Frame = -1 Query: 314 GADYDTTLMAWYERFLAAWPEIA-----DNYSERFKRMFT 348 G DY L W+ F PE N S RF R++ Sbjct: 6124 GCDYGDLLQPWHH-FHLLLPERVVR**HGNRSIRFVRLWV 6008 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +3 Query: 342 RFKRMFTYYLNAC 354 R+ R Y+NAC Sbjct: 6687 RYTRACCVYINAC 6725 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -3 Query: 84 LENQLPHHFKDTLR 97 L ++LP F+ TLR Sbjct: 4562 LGHELPP*FRSTLR 4521 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 345 RMFTYYLNACAG 356 +MF ++N C G Sbjct: 4960 KMFDKHINRCTG 4925 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CH10_ECOLI P0A6F9 10 kDa chaperonin (Protein Cpn10) (groES protein) (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +2 Query: 90 DILAIVEA 97 +ILA+VEA Sbjct: 3848 EILAVVEA 3871 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CH60_ECOLI P0A6F5 60 kDa chaperonin (Protein Cpn60) (groEL protein) (548 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.9, Method: Compositional matrix adjust. Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 4/88 (4%) Frame = +1 Query: 115 DLKRGIDKAVTAAVEELKALSVPCSDSKAIAQVGTISANSDETVGKL---IAEAMDKVGK 171 +LKR +++ V +EE D+K +A+ A +E GK IAE ++ + Sbjct: 5896 ELKRSVEREVRRKIEE---------DAKRVAEEARKMAAENE--GKWPEPIAEQIE-LTD 6039 Query: 172 EGVITVEDGTGLQDELDV-VEGMQFDRG 198 V T + +DE D VEG + R Sbjct: 6040 YHVTTSQHARAAEDENDAKVEGDRRSRS 6123 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHAA_ECOLI P31801 Calcium/proton antiporter (366 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHAB_ECOLI P0AE63 Cation transport regulator chaB (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHAC_ECOLI P39163 Cation transport protein chaC (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +3 Query: 51 GYGSLMWNPAL 61 GYG +W+ L Sbjct: 2601 GYGRFIWSGCL 2633 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHBF_ECOLI P17411 6-phospho-beta-glucosidase (3.2.1.86) (Cellobiose-6-phosphate hydrolase) (Phospho-chitobiase) (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = +1 Query: 59 IDNAGVPMKLYKTLDRREAL 78 ++ AG+P ++ + L EAL Sbjct: 1786 LEAAGIPTQMERLLSDNEAL 1845 Score = 16.9 bits (32), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +1 Query: 423 LLAREMILAHEKWLPNFADC 442 LLA E+ + ++ + FAD Sbjct: 5404 LLAAEISTSVDRLIQQFADA 5463 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHBG_ECOLI P37794 UPF0249 protein chbG (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.24 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.24, Method: Compositional matrix adjust. Identities = 14/52 (26%), Positives = 23/52 (44%) Frame = +2 Query: 87 WQLAEEDALPLEEITQELVSQYLRFIELFGRKPTHLDSHHHVHMFPQIFPIV 138 W++ E +P EIT E +Q + E P +S ++ QI +V Sbjct: 4022 WKVVSEVVMPTREITLE-AAQEISKEEAQQNTPISTESEIPTYIEDQIKSVV 4174 Score = 20.8 bits (42), Expect = 0.33, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 13/34 (38%) Frame = -2 Query: 206 FIDNTIRQSAYCFPRLTELDVLTSASLKGAIAQR 239 F+DN CF L LD L + G Q Sbjct: 6855 FVDNNDNGDFRCFSMLDGLDRLWHDPIIGRNNQN 6754 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 10/41 (24%), Positives = 16/41 (39%) Frame = -2 Query: 12 FGLSKGQNYGIIEACRNGIVTSTTALVNGQAIDHAVQLSRD 52 FGL + ++ + ST ++ QAI RD Sbjct: 3117 FGL*ARRATKLLHPASENVANSTLIIIQKQAISMNWYRGRD 2995 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 7/17 (41%) Frame = -2 Query: 203 HPAFIDNTIRQSAYCFP 219 HP F N I C P Sbjct: 6675 HPVFGFNVISPDMLCDP 6625 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHBR_ECOLI P17410 HTH-type transcriptional regulator chbR (Chb operon repressor) (280 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.46, Method: Compositional matrix adjust. Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 1/44 (2%) Frame = -1 Query: 25 FHVFIYNKTESISGLHQHDYYEFTLVLT-GRYFQEINGKRVLLE 67 F F+YN G + Y F LV R F+ +RVLL Sbjct: 4231 FAYFLYNNLFRCLGSYAVKNYRFNLVFNISRDFRFGGNRRVLLS 4100 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 11/15 (73%) Frame = -2 Query: 59 INGKRVLLERGDFVF 73 I GK L+ +GDF+F Sbjct: 2193 IGGK--LITQGDFIF 2155 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 11 IATAREQQLFNGK 23 ATAR+ F+G+ Sbjct: 985 CATARKSACFSGE 1023 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHEA_ECOLI P07363 Chemotaxis protein cheA (2.7.13.3) (654 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -1 Query: 333 FSRYPRLVRDLAG 345 FSR+PR D G Sbjct: 457 FSRHPRRASD*QG 419 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHEB_ECOLI P07330 Chemotaxis response regulator protein-glutamate methylesterase (3.1.1.61) (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHER_ECOLI P07364 Chemotaxis protein methyltransferase (2.1.1.80) (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -1 Query: 79 SGEWQAFINSLTTNL 93 S +W+ INS TNL Sbjct: 3469 SVDWRPGINSTPTNL 3425 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -1 Query: 71 NLLESNQH 78 N LESNQH Sbjct: 2131 NPLESNQH 2108 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHEW_ECOLI P0A964 Chemotaxis protein cheW (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = +2 Query: 115 QIRPAPEFAVTLSTEYLTGL 134 Q+ P F V + +TGL Sbjct: 3269 QLYQTPSFGVFCYLKKMTGL 3328 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHEY_ECOLI P0AE67 Chemotaxis protein cheY (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.9, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +3 Query: 61 PNMDGLELLKT 71 PN+ L +LKT Sbjct: 4125 PNLKSLLILKT 4157 Score = 15.8 bits (29), Expect = 4.4, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 31 NNVEEAEDGVDALNKLQA 48 NN+ +GVD LQ+ Sbjct: 2428 NNLNAI*NGVDTNESLQS 2375 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHEZ_ECOLI P0A9H9 Chemotaxis protein cheZ (214 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHIA_ECOLI P13656 Probable bifunctional chitinase/lysozyme (Chitinase) (3.2.1.14) (Lysozyme) (3.2.1.17) (Precursor) (897 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.1, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 9/9 (100%) Frame = +2 Query: 86 NTLSCEKSG 94 +T+SC+KSG Sbjct: 6905 STVSCQKSG 6931 Score = 18.1 bits (35), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -3 Query: 121 TVPSNSSVVAWNKQQGGQTW 140 + P S++ KQQ +TW Sbjct: 3656 SFPQIVSIIFSGKQQALKTW 3597 Score = 17.7 bits (34), Expect = 9.3, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +1 Query: 198 QPSPDVKPAPDVKPAPDV 215 QP+ D K + KP+ D+ Sbjct: 2782 QPAKDEKISAPPKPSSDI 2835 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHO_ECOLI P76213 Excinuclease cho (3.1.25.-) (Endonuclease cho) (UvrC homolog protein) (295 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.008 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 26.2 bits (56), Expect = 0.008, Method: Compositional matrix adjust. Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 2/48 (4%) Frame = +2 Query: 173 EPLSRGRACFRSALKRC--AGACCGKESHEEHALRLRQSLERLRVVCW 218 +P SR + ++ KR GAC G A+ ER+ +V W Sbjct: 4556 DPASRAKIAVKTNDKRIDPIGACVGMRGARVQAVSNELGGERIDIVLW 4699 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 13/54 (24%), Positives = 27/54 (50%), Gaps = 2/54 (3%) Frame = +3 Query: 10 LEFEAAAIYEYPEHLRSFLNDLPTRPGV--YLFHGESDTMPLYIGKSVNIRSRV 61 + ++ +A+ + E + N + PG+ LF E T Y+G+ +N+ R+ Sbjct: 3522 VSYQVSAVLDVEEPITCPYNLEVSSPGLERLLFTAEDYTD--YLGERINLTLRI 3677 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 13/19 (68%) Frame = +2 Query: 113 NRQLCALQLNEKRVDVVYA 131 +R A++ N+KR+D + A Sbjct: 4565 SRAKIAVKTNDKRIDPIGA 4621 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHPA_ECOLI P0AE70 PemK-like protein 1 (Protein mazF) (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHPB_ECOLI P33647 PemK-like protein 2 (116 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 7.7, Method: Composition-based stats. Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 1/29 (3%) Frame = +2 Query: 15 VGFDPASGHEQQGAGRPALVLSVQ-AFNQ 42 V F + GH ALV ++ A NQ Sbjct: 1439 VQFTDSKGHTLNQQQNDALVAVLRAALNQ 1525 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHPR_ECOLI P0AE72 PemI-like protein 1 (Protein mazE) (82 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CHPS_ECOLI P08365 PemI-like protein 2 (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CILA_ECOLI P75726 Citrate lyase alpha chain (Citrase alpha chain) (4.1.3.6) (Citrate (pro-3S)-lyase alpha chain) (Citrate CoA-transferase subunit) (2.8.3.10) (510 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.57 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.57, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 3/33 (9%) Frame = -3 Query: 182 KACCGSLGYAIV---DADNAKQVVMLTEELLPY 211 K CC LG+ ++ A + + +E LLP+ Sbjct: 6248 KLCCKVLGFLLLLRPTARASSRSAFDSESLLPF 6150 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +2 Query: 128 LAEEISRGLLAEPVQIHS 145 L +ISRG + IH+ Sbjct: 3416 LGTQISRGRIYSRAPIHT 3469 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CINAL_ECOLI P77808 CinA-like protein (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 2/45 (4%) Frame = -3 Query: 175 LPQPPVCLRLTTFGRSESDLAQSLDTLQLPP--GVTMGYRSSMPI 217 +P PP C+ +S+ + L ++L P G M RS P+ Sbjct: 200 IPCPPFCI------KSKPVASSPLSRIKLSPTLGFIMLSRSKFPV 84 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CIRA_ECOLI P17315 Colicin I receptor (Precursor) (663 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +3 Query: 16 AISCAWPVLA 25 AISC W +LA Sbjct: 1398 AISCKWVILA 1427 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CISY_ECOLI P0ABH7 Citrate synthase (2.3.3.1) (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = +2 Query: 131 PMAVMCGI 138 PMAV CGI Sbjct: 2189 PMAVACGI 2212 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CITC_ECOLI P77390 [Citrate [pro-3S]-lyase] ligase (6.2.1.22) (Citrate lyase synthetase) (Acetate:SH-citrate lyase ligase) (352 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CITD_ECOLI P69330 Citrate lyase acyl carrier protein (Citrate lyase gamma chain) (98 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CITE_ECOLI P0A9I1 Citrate lyase subunit beta (Citrase beta chain) (4.1.3.6) (Citrate (pro-3S)-lyase subunit beta) (Citryl-CoA lyase subunit) (4.1.3.34) (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -2 Query: 186 RCSILQAARS 195 RCS+ QAA + Sbjct: 579 RCSVEQAANN 550 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CITG_ECOLI P77231 2-(5''-triphosphoribosyl)-3'-dephosphocoenzyme-A synthase (2-(5''-triphosphoribosyl)-3'-dephospho-CoA synthase) (2.7.8.25) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 97 ACEGDMF 103 AC+GD+F Sbjct: 970 ACKGDIF 950 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CITT_ECOLI P0AE74 Citrate carrier (Citrate transporter) (Citrate/succinate antiporter) (487 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CITX_ECOLI P0A6G5 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase (2.7.7.61) (Holo-ACP synthase) (Holo-citrate lyase synthase) (Apo-ACP nucleodityltransferase) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -1 Query: 157 RGKTHQ 162 RGKTH Sbjct: 2191 RGKTHH 2174 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLCA_ECOLI P37019 H(+)/Cl(-) exchange transporter clcA (ClC-ec1) (473 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.20, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 21/36 (58%) Frame = +1 Query: 377 ELFPQYHLEAGTFAIAGMGALLAASIRAPLTGIILV 412 ELF + + A +A +G + A ++R P+T + LV Sbjct: 319 ELFIEANPIAVKWACKRLGLITAETLRLPMTSLTLV 426 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLCB_ECOLI P76175 Voltage-gated ClC-type chloride channel clcB (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.52, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 11/15 (73%) Frame = -2 Query: 388 PGLLIACVIASVISR 402 LLI+C +SVISR Sbjct: 4098 SSLLISCAASSVISR 4054 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 6/14 (42%) Frame = +2 Query: 70 GWQKFTQQRPHAPT 83 GW +R H P Sbjct: 3077 GWSSLVARRAHNPK 3118 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLPA_ECOLI P0ABH9 ATP-dependent Clp protease ATP-binding subunit clpA (758 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/42 (21%), Positives = 23/42 (54%) Frame = +2 Query: 643 RLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQ 684 R+D ++W D+ + V++ + + + V D K +++ V + Sbjct: 4679 RIDIVLWDDNPAQFVLNAMAPAEVASIVVDEDAKTMNIAVEE 4804 Score = 20.0 bits (40), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 11/22 (50%) Frame = -2 Query: 422 NVADIESVVARIARIPEKSVSQ 443 NV +ESV + R+P+ Sbjct: 1470 NVCPLESVNCTLLRLPKSPTCN 1405 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLPB_ECOLI P63284 Chaperone protein clpB (Heat shock protein F84.1) (857 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.7, Method: Composition-based stats. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -2 Query: 178 DPVIGRDEE 186 DP+IGR+ + Sbjct: 6783 DPIIGRNNQ 6757 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLPP_ECOLI P0A6G7 ATP-dependent Clp protease proteolytic subunit (3.4.21.92) (Endopeptidase Clp) (Caseinolytic protease) (Protease Ti) (Heat shock protein F21.5) (Precursor) (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 14/21 (66%), Gaps = 2/21 (9%) Frame = -2 Query: 185 DRFLSAPEAVEYG--LVDSIL 203 DRF + AV+Y L++++L Sbjct: 6300 DRFTNDNVAVDYSNWLIETLL 6238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLPS_ECOLI P0A8Q6 ATP-dependent Clp protease adapter protein clpS (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 9.2, Method: Compositional matrix adjust. Identities = 3/9 (33%), Positives = 6/9 (66%) Frame = -2 Query: 4 TNDWLDFDQ 12 +W+ FD+ Sbjct: 351 NGNWIGFDK 325 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLPX_ECOLI P0A6H1 ATP-dependent Clp protease ATP-binding subunit clpX (424 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 18/33 (54%) Frame = +2 Query: 23 HEVRKLIAGPSVYICDECVDLCNDIIREEIKEV 55 +E+R GP ++I ++ ++ R E+ E+ Sbjct: 4421 YEIRPEARGPQLFISRSRPEMLIELFRIEVPEI 4519 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 11/21 (52%) Frame = -1 Query: 210 ALLKLIEGTVAAVPPQGGRKH 230 ALL L +V + P GG H Sbjct: 5926 ALLVLQNVSVQPLLPHGGSCH 5864 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CLS_ECOLI P0A6H8 Cardiolipin synthetase (2.7.8.-) (Cardiolipin synthase) (CL synthase) (486 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +2 Query: 468 RPLWQRVAERLF 479 RP+WQ+V R F Sbjct: 212 RPMWQQVE*RSF 247 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CMOA_ECOLI P76290 tRNA (cmo5U34)-methyltransferase (2.1.1.-) (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -2 Query: 230 FQCFNFGSLVALK 242 F C NFG A+K Sbjct: 6618 FPCRNFGRTNAIK 6580 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CMOB_ECOLI P76291 tRNA (mo5U34)-methyltransferase (2.1.1.-) (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.32, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 232 DENTVLVPGDRYAQMR 247 DEN V GDR ++ R Sbjct: 6079 DENDAKVEGDRRSRSR 6126 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 15/32 (46%) Frame = -3 Query: 174 AHLLPLGIEQLPALKAFDTVFSMGVLYHRRSP 205 A + P + + +L F VF L H+R P Sbjct: 2276 ASITPPKLPRKRSLSIFSNVF----LSHKRQP 2193 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -3 Query: 290 VTESLADFLDPHDPG 304 VTE ++DF P Sbjct: 5495 VTELVSDFFKPASAN 5451 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -1 Query: 54 PYRLDLLHSVT 64 P+R+ LH+ T Sbjct: 1462 PFRIGELHATT 1430 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CN16_ECOLI P08331 2',3'-cyclic-nucleotide 2'-phosphodiesterase (3.1.4.16) (Precursor) (647 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.5, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 388 EHYIQGDP 395 EH++ GDP Sbjct: 2473 EHFLCGDP 2496 Score = 19.6 bits (39), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 15/28 (53%) Frame = +2 Query: 431 FRNAADLYLYPNTLIVVKASGKEVKEWL 458 +N A ++L +++ + KE+ WL Sbjct: 2813 LQNRAAIFLSDRLVLIFVSEHKEILNWL 2896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CNU_ECOLI P64467 OriC-binding nucleoid-associated protein (H-NS/stpA-binding protein 2) (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.8, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 9 KFRKISSLES 18 +FR + SLES Sbjct: 4000 RFRDLPSLES 4029 Score = 14.6 bits (26), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 6 YLLKFR 11 YLL+FR Sbjct: 3054 YLLRFR 3071 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COAA_ECOLI P0A6I3 Pantothenate kinase (2.7.1.33) (Pantothenic acid kinase) (Rts protein) (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = +2 Query: 145 KGFPESYDMHRLVKFVS 161 K F +HRL FVS Sbjct: 2345 KRFKVKLRLHRLQAFVS 2395 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +1 Query: 200 GLNVLQSGMDYPHDPHHVFVS 220 G N+ Q +PH VF+S Sbjct: 3436 GSNLFQGA-----NPHCVFIS 3483 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COABC_ECOLI P0ABQ0 Coenzyme A biosynthesis bifunctional protein coaBC (DNA/pantothenate metabolism flavoprotein) (Phosphopantothenoylcysteine decarboxylase) (PPCDC) (4.1.1.36) (CoaC) (Phosphopantothenate--cysteine ligase) (6.3.2.5) (Phosphopantothenoylcysteine synthase) (PPC synthetase) (PPCS) (CoaB) (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.28, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 12/29 (41%) Frame = -2 Query: 168 DPLTIVDMAVAHFSPVNDLKHLNIMITAG 196 +P + AHFS + +TAG Sbjct: 5958 NPFRVFFYLTAHFSFYRTFQFSRFCLTAG 5872 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COAD_ECOLI P0A6I6 Phosphopantetheine adenylyltransferase (2.7.7.3) (Pantetheine-phosphate adenylyltransferase) (PPAT) (Dephospho-CoA pyrophosphorylase) (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 13/33 (39%) Frame = +2 Query: 60 AHLGNVEVVGFSDLMANFARNQHATVLIRGLRA 92 GN V F+D + Q L+ LRA Sbjct: 1415 GDFGNRSSVQFTDSKGHTLNQQQNDALVAVLRA 1513 Score = 15.4 bits (28), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -1 Query: 144 HFLPENVHQALM 155 + LPE++ ALM Sbjct: 6748 YLLPEHLVHALM 6713 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COAE_ECOLI P0A6I9 Dephospho-CoA kinase (2.7.1.24) (Dephosphocoenzyme A kinase) (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COBC_ECOLI P52086 Alpha-ribazole phosphatase (3.1.3.73) (Alpha-ribazole-5'-phosphate phosphatase) (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 11/23 (47%) Frame = +2 Query: 65 VLSDRQLPVQIIPELNEMFFGDW 87 V+ + LP+ + N+ DW Sbjct: 860 VMQNESLPIADRQDANQTLTTDW 928 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 4/18 (22%), Positives = 12/18 (66%) Frame = -3 Query: 155 LLIARLIGMPAEAMWHFR 172 ++ + ++ +PA + H+R Sbjct: 5399 MVTSVMLFLPATVITHYR 5346 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COBS_ECOLI P36561 Cobalamin synthase (2.-.-.-) (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +3 Query: 86 DTCDGV 91 D CDGV Sbjct: 3483 DNCDGV 3500 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COBT_ECOLI P36562 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase (NN:DBI PRT) (2.4.2.21) (N(1)-alpha-phosphoribosyltransferase) (359 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 13/39 (33%), Positives = 17/39 (43%) Frame = +2 Query: 261 VLLDGFLSYAAALAACQMSPAIKPYLIPSHLSAEKGARI 299 VL +LS +CQ S P+L L E+G I Sbjct: 6884 VLEQNYLS----TVSCQKSGEEIPHLFTYQLKREQGLMI 6988 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%), Gaps = 1/10 (10%) Frame = -1 Query: 283 KP-YLIPSHL 291 KP YL+P HL Sbjct: 6757 KPRYLLPEHL 6728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COBU_ECOLI P0AE76 Bifunctional adenosylcobalamin biosynthesis protein cobU (Adenosylcobinamide kinase) (2.7.1.156) (Adenosylcobinamide-phosphate guanylyltransferase) (2.7.7.62) (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.45, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 14/28 (50%) Frame = -2 Query: 7 GGARSGKSRHAEALIGDSSQVLYIATSQ 34 GGA S +RH+ I +I T+Q Sbjct: 6534 GGA*SRFTRHSHIAITHQCFFEFIFTTQ 6451 Score = 18.9 bits (37), Expect = 0.81, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 14/26 (53%) Frame = +2 Query: 154 IAGRVNQQLAAAANEVWLVVSGIGVK 179 AGR + N++ LVV +G++ Sbjct: 962 FAGRYQISVQQQGNQLALVVKSLGLQ 1039 Score = 15.4 bits (28), Expect = 8.2, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -3 Query: 55 WRTVERWQ 62 WRT+ ++Q Sbjct: 4982 WRTLHQFQ 4959 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CODA_ECOLI P25524 Cytosine deaminase (3.5.4.1) (Cytosine aminohydrolase) (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.038 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.038, Method: Compositional matrix adjust. Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 3/56 (5%) Frame = -1 Query: 307 INVCFGHDDVFD---PWYPLGTANMLQVLHMGLHVCQLMGYGQINDGLNLITHHSA 359 I C G D+F P+YP+G+ ++ +L +G DG L+ HH Sbjct: 976 ITACKG--DIFIGSVPFYPIGSERLICILTIG-------------DGEALVLHHCG 854 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +3 Query: 311 FGHDDVFDPWY 321 FGH F+PWY Sbjct: 735 FGHQ--FNPWY 761 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CODB_ECOLI P0AA82 Cytosine permease (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 11/47 (23%) Frame = +3 Query: 295 TGMSSKTLSVINGIIGTVCA-----------LWLYNNFVGWLTFLSA 330 G +S + +I VC W+YNN WL +S Sbjct: 933 NGTEPMKMSPLQAVIRLVCNSKEISLL*W*NHWVYNNKKKWLLRISR 1073 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 17/33 (51%) Frame = -3 Query: 128 INLLIAVSGLLMTVTVFFGISALTVLSVIAVPA 160 +N + GLL +FF +++ LS+ A + Sbjct: 5849 VNFFFSTIGLLFVSAIFFALASF-ALSLFACSS 5754 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COF_ECOLI P46891 HMP-PP phosphatase (3.6.1.-) (272 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 166 LGERAHLCFS 175 LG+R LCF Sbjct: 1178 LGDRFCLCFE 1149 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COPA_ECOLI Q59385 Copper-exporting P-type ATPase A (3.6.3.n1) (834 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.6, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 10/25 (40%) Frame = -2 Query: 349 LTTGDRVPVDGEITQGEAWLDEAML 373 + GDR D WL E +L Sbjct: 6312 FSNGDRFTNDNVAVDYSNWLIETLL 6238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= COPB1_ECOLI P13959 Replication regulatory protein repA2 (Protein copB) (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CORA_ECOLI P0ABI4 Magnesium transport protein corA (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 91 TVAFTIRDGRLFTL 104 + AFT R FT+ Sbjct: 6222 SFAFTANSPRFFTI 6181 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CORC_ECOLI P0AE78 Magnesium and cobalt efflux protein corC (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.69, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 16/24 (66%) Frame = +2 Query: 101 SRFPVISEDKDHIEGILMAKDLLP 124 SR +I + ++ EGI+ +D+LP Sbjct: 4307 SRESIILDLGNNAEGIIGQEDMLP 4378 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CPTA_ECOLI P0CB39 Phosphoethanolamine transferase cptA (2.7.-.-) (577 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 13/33 (39%) Frame = -2 Query: 254 LYGYPRETTPELDALHKTDPNLTVFNNVVTSRP 286 LYGY P + + PN + + + P Sbjct: 5403 LYGYICHAVPSCYSYYALSPNQQILRAAIINLP 5305 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CPXA_ECOLI P0AE82 Sensor protein cpxA (2.7.13.3) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -3 Query: 331 SLTVNFPPGPWPLYGNP 347 LT+ + W L GNP Sbjct: 818 CLTIIY*YQQWTLSGNP 768 Score = 16.9 bits (32), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +3 Query: 374 AVDKDGITITVD 385 AVD + I +TVD Sbjct: 3717 AVDGEMIIVTVD 3752 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CPXP_ECOLI P0AE85 Periplasmic protein cpxP (Precursor) (166 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.85, Method: Compositional matrix adjust. Identities = 5/19 (26%), Positives = 9/19 (47%) Frame = -1 Query: 36 LTQRSTQSHMFDGISLTEH 54 L +H FDG++ + Sbjct: 2788 LVDSDFPTHCFDGVACYSY 2732 Score = 17.3 bits (33), Expect = 1.9, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +3 Query: 115 KVRNQMYRLLTP 126 K+R+ YR+ P Sbjct: 1851 KIRDDPYRMCHP 1886 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CPXR_ECOLI P0AE88 Transcriptional regulatory protein cpxR (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = +1 Query: 77 LTARGSELDRVLGLELGADD 96 + ARG++ ++ L + ADD Sbjct: 6718 MRARGAQATDIVVLVVAADD 6777 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CRCA_ECOLI P37001 Protein crcA (186 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +2 Query: 143 NYIPLPVLLPLASV 156 NY+ P+ LPL+ + Sbjct: 320 NYLSKPIQLPLSGL 361 Score = 16.5 bits (31), Expect = 3.8, Method: Compositional matrix adjust. Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 1/59 (1%) Frame = -2 Query: 104 NKWEPIAGYGWEST-WRPLADENFHLGLGFTAGVTARDNWNYIPLPVLLPLASVGYGPV 161 NKW + W+ T R + + + F V DN ++ +L L + + P+ Sbjct: 6951 NKWGISSPLFWQDTVLR*FCSKTLWISVWFIYFVDNNDNGDFRCFSMLDGLDRLWHDPI 6775 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CRCB_ECOLI P37002 Protein crcB (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CREA_ECOLI P0AE91 Protein creA (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 8.8, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = -2 Query: 99 AQGEVVFKK 107 QG+ +FK+ Sbjct: 2175 TQGDFIFKQ 2149 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CREB_ECOLI P08368 Transcriptional regulatory protein creB (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 4/37 (10%) Frame = -3 Query: 184 WEDAQDTYDRTVDTHIKTLRAK----LRAINPDLSPI 216 + Q Y D ++ + +K L +NP +SP+ Sbjct: 1124 YLSLQSIYST*HDCNVVSRYSK*PFFLVVVNPVISPL 1014 Score = 15.8 bits (29), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +2 Query: 145 QISWF 149 QISWF Sbjct: 6743 QISWF 6757 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CREC_ECOLI P08401 Sensor protein creC (2.7.13.3) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -3 Query: 145 SSVMYVAAPIM 155 SSV Y+ PI+ Sbjct: 2534 SSVTYIVVPIL 2502 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CRED_ECOLI P08369 Inner membrane protein creD (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -2 Query: 2 LKSPLFWKMTSL 13 + SPLFW+ T L Sbjct: 6939 ISSPLFWQDTVL 6904 Score = 18.5 bits (36), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +3 Query: 368 LQAVLKGWCNS 378 LQAV++ CNS Sbjct: 963 LQAVIRLVCNS 995 Score = 17.3 bits (33), Expect = 7.1, Method: Compositional matrix adjust. Identities = 15/62 (24%), Positives = 27/62 (43%) Frame = +1 Query: 120 KADFDVSRLSELNAPNITLGKPFIVISVGDARGIGVVKAPEVNGTALTIEPGTGLEQGGQ 179 +A ++ RLS + ++G FI++S DA G + ++GGQ Sbjct: 79 EATGNLERLSMIKP---SVGDNFILLSGDDATGFDFI------------------QKGGQ 195 Query: 180 GV 181 G+ Sbjct: 196 GI 201 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CRL_ECOLI P24251 Sigma factor-binding protein crl (Curlin genes transcriptional activatory protein) (133 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.9, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 36 DCLAVC 41 +CL VC Sbjct: 737 ECLTVC 720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CRP_ECOLI P0ACJ8 Catabolite gene activator (cAMP receptor protein) (cAMP regulatory protein) (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 3/59 (5%) Frame = +3 Query: 151 LAKQPDAMTHPDGMQIKITRQEI---GQIVGCSRETVGRILKMLEDQNLISAHGKTIVV 206 L +Q H Q+K+T G ++GC L + LIS G I++ Sbjct: 4539 LRRQFVTQRHVLKSQLKLTTSVSIL*GHVLGCGEHVFKLCLTSWGENVLISFCGMIILL 4715 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -3 Query: 157 AMTHPDGMQIK 167 THP G++ K Sbjct: 3368 GQTHPQGIKKK 3336 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSDA_ECOLI Q46925 Cysteine sulfinate desulfinase (CSD) (4.4.1.-) (401 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -3 Query: 287 EWLADYDINQAES 299 +WL + D+NQ S Sbjct: 3152 KWLREPDLNQRPS 3114 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSGA_ECOLI P28307 Major curlin subunit (Precursor) (151 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSGB_ECOLI P0ABK7 Minor curlin subunit (Precursor) (151 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSGC_ECOLI P52107 Putative curli production protein csgC (Precursor) (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.98, Method: Composition-based stats. Identities = 7/16 (43%), Positives = 8/16 (50%) Frame = -3 Query: 27 IIPEVTLTQSCLCRVQ 42 I+P V L CL Q Sbjct: 764 IVPRVELVAECLTVCQ 717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSGD_ECOLI P52106 Probable csgAB operon transcriptional regulatory protein (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSGE_ECOLI P0AE95 Curli production assembly/transport component csgE (Precursor) (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSGF_ECOLI P0AE98 Curli production assembly/transport component csgF (Precursor) (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSGG_ECOLI P0AEA2 Curli production assembly/transport component csgG (Precursor) (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.80, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%) Frame = +2 Query: 159 FGIGADTQYQLDQIAVNLRVVNV 181 +G + +YQ +IA ++NV Sbjct: 2984 YGFKSRPRYQFIEIACFWMMINV 3052 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 16/35 (45%) Frame = +2 Query: 172 IAVNLRVVNVSTGEILSSVNTSKTILSYEVQAGVF 206 IAV +N + L + + SY++Q G F Sbjct: 1319 IAVTYSPINSRDWDALGAQDPKLKSGSYQLQVGDF 1423 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 125 RIPLQSLTAAN 135 R+P+ SLT N Sbjct: 397 RLPMTSLTLVN 429 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSID_ECOLI P76621 Protein csiD (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 12/23 (52%) Frame = +1 Query: 300 HPDLRRELMRQRGYFAYASNHYQ 322 H D +RE +R ++ HY+ Sbjct: 856 HSDAKREPPHRRSSGCKSNAHYR 924 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSIE_ECOLI P54901 Stationary phase-inducible protein csiE (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.92, Method: Compositional matrix adjust. Identities = 18/73 (24%), Positives = 37/73 (50%), Gaps = 1/73 (1%) Frame = +2 Query: 307 ESEYGVHLSDEESGLVAVIFGAWLMQENDLHEKQIILLTGNDSEREAQIEQ-QLRELTLL 365 ESE ++ D+ + +V+F Q KQ+I+ ++ER IEQ + +E ++ Sbjct: 4127 ESEIPTYIEDQ---IKSVVFDRITTQ----TAKQVIVQKVREAERAVVIEQFREQEGKIV 4285 Query: 366 PLNIKHMSVKAFL 378 +K +S ++ + Sbjct: 4286 TATVKKVSRESII 4324 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +2 Query: 282 NTLPEEFARLYPRL 295 NTL ++ ++ PRL Sbjct: 6059 NTLGQQKMKMMPRL 6100 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPA_ECOLI P0A9X9 Cold shock protein cspA (CSP-A) (7.4 kDa cold shock protein) (CS7.4) (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 5.5, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 16 KGFGFITPDDGSKDVFVH 33 KGF S+++FVH Sbjct: 3892 KGFLIRNGFYNSQNLFVH 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPB_ECOLI P36995 Cold shock-like protein cspB (CSP-B) (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 3.3, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -1 Query: 16 KGFGFISPVDGSKDVFVH 33 KGF + S+++FVH Sbjct: 3892 KGFLIRNGFYNSQNLFVH 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPC_ECOLI P0A9Y6 Cold shock-like protein cspC (CSP-C) (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 4.8, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 15 KGFGFITPADGSKDVFVH 32 KGF S+++FVH Sbjct: 3892 KGFLIRNGFYNSQNLFVH 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPD_ECOLI P0A968 Cold shock-like protein cspD (CSP-D) (74 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.63, Method: Composition-based stats. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = +1 Query: 16 GFICPEGGGEDIFAHYSTIQMDG 38 G + E GG+ F H S + G Sbjct: 6910 GILPEEWGGDSPFVHVSAKKGTG 6978 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPE_ECOLI P0A972 Cold shock-like protein cspE (CSP-E) (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 7.0, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 15 KGFGFITPEDGSKDVFVH 32 KGF S+++FVH Sbjct: 3892 KGFLIRNGFYNSQNLFVH 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPF_ECOLI P0A976 Cold shock-like protein cspF (CSP-F) (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.055 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.055, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 16/28 (57%) Frame = +3 Query: 3 RKMTGIVKTFDGKSGKGLITPSDGRIDV 30 RK GI+K DG+ +I DG+ +V Sbjct: 3693 RKWQGIIKAVDGEM---IIVTVDGKDEV 3767 Score = 13.9 bits (24), Expect = 6.7, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 7/11 (63%) Frame = +3 Query: 9 VKTFDGKSGKG 19 + +FD G+G Sbjct: 6585 LHSFDQSCGRG 6617 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPG_ECOLI P0A978 Cold shock-like protein cspG (CPS-G) (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.6, Method: Composition-based stats. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = -2 Query: 33 HFTAIQSNEFRTLNENQKVEFS 54 HF SN R N+N V++S Sbjct: 6327 HFIR*FSNGDRFTNDNVAVDYS 6262 Score = 13.9 bits (24), Expect = 8.0, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 16 KGFGFITPDDGSKDVFVH 33 KGF S+++FVH Sbjct: 3892 KGFLIRNGFYNSQNLFVH 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPH_ECOLI P0A982 Cold shock-like protein cspH (CSP-H) (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.60, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = +1 Query: 29 EVQVHISAFTPRDA 42 +++ H+S PRD+ Sbjct: 3208 DLKKHLSEVMPRDS 3249 Score = 15.4 bits (28), Expect = 2.4, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = +3 Query: 9 VKTFDRKSGKG 19 + +FD+ G+G Sbjct: 6585 LHSFDQSCGRG 6617 Score = 14.2 bits (25), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 12/28 (42%) Frame = +3 Query: 10 KTFDRKSGKGFIIPSDGRKEVQVHISAF 37 KTF +GF G ++ +S F Sbjct: 3216 KTFIGSHAEGFFQRRIGSSCIKPRVSGF 3299 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSPI_ECOLI P0A986 Cold shock-like protein cspI (CPS-I) (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 6.0, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 16 KGFGFITPKDGSKDVFVH 33 KGF S+++FVH Sbjct: 3892 KGFLIRNGFYNSQNLFVH 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSRA_ECOLI P69913 Carbon storage regulator (61 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.6, Method: Composition-based stats. Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 1/36 (2%) Frame = +1 Query: 20 VTVLGVKGNQVRIGVNAPK-EVSVHREEIYQRIQAE 54 V LG+ NQV +N P E+ + ++++ I +E Sbjct: 1909 VKRLGITENQV---LNHPLFELFLKNDQLHDPIVSE 2007 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CSTA_ECOLI P15078 Carbon starvation protein A (701 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.3, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 13/29 (44%) Frame = -3 Query: 650 IFFMXXXXXLALFSIKTALAALKDPKPTA 678 IFF L+LF+ +ALA T Sbjct: 5804 IFFALASFALSLFACSSALAGFFSTCSTC 5718 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUEO_ECOLI P36649 Blue copper oxidase cueO (Copper efflux oxidase) (Precursor) (516 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.17 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.17, Method: Compositional matrix adjust. Identities = 24/80 (30%), Positives = 32/80 (40%), Gaps = 10/80 (12%) Frame = +2 Query: 21 LWSRAVFAAERPTLPIPD------LLTTDARNRIQLTIGAGQSTFGGKTATTWGYNGNLL 74 LWS+ + +LPI D LTTD I+ F G+ + GN L Sbjct: 839 LWSQITTVMQNESLPIADRQDANQTLTTDW---IKWNRADEDVPFAGRYQISVQQQGNQL 1009 Query: 75 GPAVK----LQRGKAVTVDI 90 VK Q+ K VT +I Sbjct: 1010ALVVKSLGLQQQEKMVTSNI 1069 Score = 18.5 bits (36), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%) Frame = +3 Query: 157 AGLVVIEDDEILKLMLPKQWGID 179 +GL+ IE EI + + +W + Sbjct: 3972 SGLISIEKQEISRPSVVGKWSVK 4040 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUER_ECOLI P0A9G4 HTH-type transcriptional regulator cueR (Copper efflux regulator) (Copper export regulator) (135 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.96 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.96, Method: Compositional matrix adjust. Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 16/97 (16%) Frame = +1 Query: 45 NELTLLRQARQVGFNLEESG---ELVNL--------FNDPQRHSADVKRRTLEKVAEIER 93 N+LTL R+ R N+ SG + V + N P A+ ++ E+ ++E Sbjct: 5554 NKLTLQRKIRST-LNVPSSGGKSKSVQIEIRRKRTYINTPNAELANTEKAKTEQAKQVE- 5727 Query: 94 HIEEL-----QSMRDQLLALANACPGDDSADCPIIEN 125 +E+ + + + ANA D+ PI+E Sbjct: 5728 QVEKKPAKAEEQAKSESAKEANAKKIADTKSKPIVEK 5838 Score = 15.8 bits (29), Expect = 5.1, Method: Compositional matrix adjust. Identities = 4/13 (30%), Positives = 8/13 (61%) Frame = +2 Query: 122 IIENLSGCCHHRA 134 ++ + G CH R+ Sbjct: 6761 LLRPMMGSCHRRS 6799 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUSA_ECOLI P38054 Cation efflux system protein cusA (1047 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.7, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 14/27 (51%) Frame = +2 Query: 632 PQEQWRPGMTMDKIIEELDNTVRLPGL 658 P+E RPG + I+ E+ R P L Sbjct: 4376 PRENIRPGDRIRGILYEIRPEARGPQL 4456 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUSB_ECOLI P77239 Cation efflux system protein cusB (Precursor) (407 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUSC_ECOLI P77211 Cation efflux system protein cusC (Precursor) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -1 Query: 1 MSPCKLLPFCVAL 13 M PC L FC+A+ Sbjct: 3712 MIPCHLRRFCIAI 3674 Score = 17.7 bits (34), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 12/14 (85%) Frame = +1 Query: 67 ISEALVNNRDLRMA 80 + EAL+++RD+ +A Sbjct: 6469 LEEALMSDRDMGVA 6510 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUSF_ECOLI P77214 Cation efflux system protein cusF (Precursor) (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUSR_ECOLI P0ACZ8 Transcriptional regulatory protein cusR (227 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = +3 Query: 58 NGWDIVRMLRS 68 NGW LRS Sbjct: 1707 NGWSTYSSLRS 1739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUSS_ECOLI P77485 Sensor kinase cusS (2.7.13.3) (480 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 178 HYINDLMNKLI 188 HY ++NKLI Sbjct: 1079 HYNRAMLNKLI 1111 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUTA_ECOLI P69488 Divalent-cation tolerance protein cutA (C-type cytochrome biogenesis protein cycY) (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.3, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +2 Query: 92 LVLPVTHGDTD 102 ++LP+ HG D Sbjct: 656 IILPLQHGTYD 688 Score = 16.2 bits (30), Expect = 3.0, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 11/17 (64%), Gaps = 4/17 (23%) Frame = -1 Query: 81 KSHHP----YQTPELLV 93 K+HHP +QT ++ V Sbjct: 2185 KTHHPR*FYFQTSQIPV 2135 Score = 14.2 bits (25), Expect = 9.5, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +2 Query: 101 TDYLSWLNA 109 TD++ W A Sbjct: 920 TDWIKWNRA 946 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CUTC_ECOLI P67826 Copper homeostasis protein cutC (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -1 Query: 4 LEICCYSME 12 LEI C+S++ Sbjct: 4009 LEISCFSID 3983 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CVPA_ECOLI P08550 Colicin V production protein (Protein dedE) (Pur regulon 18 kDa protein) (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CVRA_ECOLI P76007 Cell volume regulation protein A (578 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYAA_ECOLI P00936 Adenylate cyclase (4.6.1.1) (ATP pyrophosphate-lyase) (Adenylyl cyclase) (848 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYAY_ECOLI P27838 Protein cyaY (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +1 Query: 22 DDWDGDS 28 ++W GDS Sbjct: 6922 EEWGGDS 6942 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYBH_ECOLI P0AAM1 Probable Ni/Fe-hydrogenase 1 B-type cytochrome subunit (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 14/32 (43%) Frame = -3 Query: 103 QGVWYEIRWYLFLAKRPSADIGHNPIAQAAMF 134 Q V Y + LFL S GH+ A A F Sbjct: 5165 QRVCYHQNFLLFLEPMWSVHSGHDHAALEASF 5070 Score = 15.8 bits (29), Expect = 8.4, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = +3 Query: 70 FTVVLLMRIYWAFVGNR 86 FT+++ +I W + N+ Sbjct: 465 FTILIARKI*WLYYKNQ 515 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYCA_ECOLI P0AAE0 D-serine/D-alanine/glycine transporter (470 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.5, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -3 Query: 307 AASSANSGVFSTSRMLFGLA 326 A SSA +G FST F + Sbjct: 5765 ACSSALAGFFSTCSTCFACS 5706 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYDA_ECOLI P0ABJ9 Cytochrome d ubiquinol oxidase subunit 1 (1.10.3.-) (Cytochrome d ubiquinol oxidase subunit I) (Cytochrome bd-I oxidase subunit I) (522 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.25 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.25, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +3 Query: 417 GEKKWLLRAALYGIPL 432 +KKWLLR + Y I + Sbjct: 1041 NKKKWLLRISRYNITI 1088 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYDB_ECOLI P0ABK2 Cytochrome d ubiquinol oxidase subunit 2 (1.10.3.-) (Cytochrome d ubiquinol oxidase subunit II) (Cytochrome bd-I oxidase subunit II) (379 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.97 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.97, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 17/30 (56%) Frame = -2 Query: 223 MYGIDGYVVKSTMDHYAASNPLNKEVVREA 252 +YG + V S +YA S N++++R A Sbjct: 5403 LYGYICHAVPSCYSYYALS--PNQQILRAA 5320 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 14/26 (53%) Frame = -2 Query: 299 LACIILTAGIAMFPFVMPSSTMMNAS 324 +AC L + AMF SST + A+ Sbjct: 4824 IACAELPSSTAMFIVFASSSTTIEAT 4747 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYDC_ECOLI P23886 ATP-binding/permease protein cydC (573 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.2, Method: Compositional matrix adjust. Identities = 11/22 (50%), Positives = 13/22 (59%) Frame = +2 Query: 391 DPQQGEILLNDSPIASLNEAAL 412 D QQG I + SPI S + AL Sbjct: 1301 DRQQGNIAVTYSPINSRDWDAL 1366 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYDD_ECOLI P29018 ATP-binding/permease protein cydD (588 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.0, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 17/32 (53%) Frame = -3 Query: 177 PLFMALVGMGAADANRRNFLALARLSGHFLDR 208 P F+ +V + + +FLA+A S + L R Sbjct: 1055 PFFLVVVNPVISPLKQADFLAVAH*SDNGLQR 960 Score = 18.5 bits (36), Expect = 4.2, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = +1 Query: 308 GTFYHAKAQAVGAADSLKTFMETP 331 G H A V + + TF++TP Sbjct: 6625 GITQHIGAYHVETENGMVTFLDTP 6696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYNR_ECOLI P27111 HTH-type transcriptional regulator cynR (Cyn operon transcriptional activator) (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYNS_ECOLI P00816 Cyanate hydratase (Cyanase) (4.2.1.104) (Cyanate lyase) (Cyanate hydrolase) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 7/14 (50%) Frame = +2 Query: 106 TTLKALVHEKFGDG 119 TTL E FGD Sbjct: 5114 TTLALKKEESFGDN 5155 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYNT_ECOLI P0ABE9 Carbonic anhydrase 1 (4.2.1.1) (Carbonate dehydratase 1) (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.00 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.00, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 14/25 (56%) Frame = +1 Query: 86 AALRVSDIVICGHSNCGAMTAIASC 110 +ALR + I GH + G T++ C Sbjct: 6517 SALRAPVVTIMGHVDHGK-TSLLDC 6588 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = +2 Query: 61 RNAGNIVPSYGP 72 R GNI +Y P Sbjct: 1304 RQQGNIAVTYSP 1339 Score = 16.2 bits (30), Expect = 5.6, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 11/25 (44%) Frame = -2 Query: 16 FPKREALFKQLATQQSPRTLFISCS 40 P+ + +L T+F SCS Sbjct: 4338 LPRSNIMLSRLTFLTVAVTIFPSCS 4264 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYNX_ECOLI P17583 Cyanate transport protein cynX (384 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -1 Query: 374 VRFPQLWVK 382 +RF +LWV+ Sbjct: 6031 IRFVRLWVQ 6005 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYOA_ECOLI P0ABJ1 Ubiquinol oxidase subunit 2 (1.10.3.-) (Ubiquinol oxidase polypeptide II) (Cytochrome o subunit 2) (Oxidase BO(3) subunit 2) (Cytochrome o ubiquinol oxidase subunit 2) (Ubiquinol oxidase chain B) (Precursor) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +2 Query: 83 SHSNKVEAVVWTV 95 S+ NKV+ +W + Sbjct: 2576 SYCNKVKVRIWAL 2614 Score = 16.9 bits (32), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +2 Query: 129 IEVVSMDWKWFF 140 +EVV +DW + F Sbjct: 2957 LEVVVLDWAYGF 2992 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYOB_ECOLI P0ABI8 Ubiquinol oxidase subunit 1 (1.10.3.-) (Ubiquinol oxidase polypeptide I) (Cytochrome o subunit 1) (Oxidase BO(3) subunit 1) (Cytochrome o ubiquinol oxidase subunit 1) (Ubiquinol oxidase chain A) (663 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.5, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 13/28 (46%) Frame = +1 Query: 405 GADFVLHNSLFLIAHFHNVIIGGVVFGC 432 G DF+ +I+ NV GG+ C Sbjct: 166 GFDFIQKGGQGIISVTANVAAGGMTELC 249 Score = 17.3 bits (33), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -1 Query: 411 HNSLFLIAHFHN 422 H+S+ L HFH+ Sbjct: 6490 HSSVLLRVHFHD 6455 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYOC_ECOLI P0ABJ3 Cytochrome o ubiquinol oxidase subunit 3 (1.10.3.-) (Cytochrome o ubiquinol oxidase subunit III) (Ubiquinol oxidase chain C) (204 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 116 EIYEFHHL 123 +Y+FHHL Sbjct: 2952 RVYQFHHL 2929 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYOD_ECOLI P0ABJ6 Cytochrome o ubiquinol oxidase protein cyoD (Ubiquinol oxidase chain D) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.6, Method: Composition-based stats. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = +2 Query: 97 WIMWN 101 WI WN Sbjct: 926 WIKWN 940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYOE_ECOLI P0AEA5 Protoheme IX farnesyltransferase (2.5.1.-) (Heme O synthase) (Heme B farnesyltransferase) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.5, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 9/21 (42%) Frame = +3 Query: 41 YTLVGVSLVVASGCVFNNYID 61 + LVGV + YID Sbjct: 3423 HKLVGVEFIPGRQSTLRIYID 3485 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSA_ECOLI P16676 Sulfate/thiosulfate import ATP-binding protein cysA (3.6.3.25) (Sulfate-transporting ATPase) (365 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +3 Query: 73 DRKVGFVFQHYALFRHMTVF 92 DR++ + + YAL + VF Sbjct: 4359 DRRICCLVKTYALVTALEVF 4418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSB_ECOLI P0A9F3 HTH-type transcriptional regulator cysB (Cys regulon transcriptional activator) (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSC_ECOLI P0A6J1 Adenylyl-sulfate kinase (2.7.1.25) (APS kinase) (Adenosine-5'-phosphosulfate kinase) (ATP adenosine-5'-phosphosulfate 3'-phosphotransferase) (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = -2 Query: 52 LHKLGVSTYLLDGDNVRHGLCS 73 ++K G+S+ L D V CS Sbjct: 6954 VNKWGISSPLFWQDTVLR*FCS 6889 Score = 16.9 bits (32), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +2 Query: 189 LLDLLRQNDIIRS 201 LLD RQND + S Sbjct: 809 LLDNNRQNDTLWS 847 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSD_ECOLI P21156 Sulfate adenylyltransferase subunit 2 (2.7.7.4) (Sulfate adenylate transferase) (SAT) (ATP-sulfurylase small subunit) (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.42, Method: Compositional matrix adjust. Identities = 12/26 (46%), Positives = 14/26 (53%) Frame = +1 Query: 99 GINPFVHGSAKHTDIMKTEGLKQALN 124 G +PFVH SAK K G+ LN Sbjct: 6934 GDSPFVHVSAK-----KGTGIDDLLN 6996 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 247 RTLGCWP 253 R+ GCWP Sbjct: 6189 RSAGCWP 6209 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSE_ECOLI P0A9D4 Serine acetyltransferase (SAT) (2.3.1.30) (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +2 Query: 87 AVRTRDPAVDKYSTPLL 103 +VRT+ K TPLL Sbjct: 3764 SVRTKQYPQSKPGTPLL 3814 Score = 16.5 bits (31), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 13/24 (54%) Frame = -1 Query: 210 GNIEVGRGAKIGAGSVVLQPVPPH 233 + + GA + +V +QP+ PH Sbjct: 5950 SRLLLSYGALLVLQNVSVQPLLPH 5879 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSG_ECOLI P0AEA8 Siroheme synthase (Uroporphyrinogen-III C-methyltransferase) (Urogen III methylase) (2.1.1.107) (SUMT) (Uroporphyrinogen III methylase) (UROM) (Precorrin-2 dehydrogenase) (1.3.1.76) (Sirohydrochlorin ferrochelatase) (4.99.1.4) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 41 NALAFIPQFTA 51 NAL ++P F A Sbjct: 2479 NALYYVPLFLA 2447 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSH_ECOLI P17854 Phosphoadenosine phosphosulfate reductase (1.8.4.8) (PAPS reductase, thioredoxin dependent) (PAdoPS reductase) (3'-phosphoadenylylsulfate reductase) (PAPS sulfotransferase) (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -1 Query: 180 LPIIDWDNRTIYQYL 194 LPI + N+ YQ++ Sbjct: 3232 LPINVFSNQNRYQFI 3188 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSI_ECOLI P17846 Sulfite reductase [NADPH] hemoprotein beta-component (SIR-HP) (SIRHP) (1.8.1.2) (570 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.36, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 12/25 (48%) Frame = -1 Query: 440 CPLAMAEAERFLPSFIDNIDNLMAK 464 CP A AE +F N+D L K Sbjct: 3424 CPKAFTGAEIISVNFCSNVDKLTPK 3350 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSJ_ECOLI P38038 Sulfite reductase [NADPH] flavoprotein alpha-component (SIR-FP) (1.8.1.2) (599 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.60, Method: Compositional matrix adjust. Identities = 11/23 (47%), Positives = 14/23 (60%) Frame = -2 Query: 7 PSALLPLNPEQLARLQAATTDLT 29 PSALLP + L+RL T +T Sbjct: 4350 PSALLPRSNIMLSRLTFLTVAVT 4282 Score = 21.2 bits (43), Expect = 0.68, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = -2 Query: 88 AAKLNVKLVNAGDYKFKQ 105 A + KL+ GD+ FKQ Sbjct: 2202 ATAIGGKLITQGDFIFKQ 2149 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 174 ELGGERL 180 ELGGER+ Sbjct: 4664 ELGGERI 4684 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSK_ECOLI P0ABK5 Cysteine synthase A (CSase A) (2.5.1.47) (O-acetylserine sulfhydrylase A) (O-acetylserine (thiol)-lyase A) (OAS-TL A) (Sulfate starvation-induced protein 5) (SSI5) (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +3 Query: 33 ESRNPSFSVKCRI 45 E PSF CR+ Sbjct: 1227 EHPTPSFGNVCRL 1265 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSM_ECOLI P16703 Cysteine synthase B (CSase B) (2.5.1.47) (O-acetylserine sulfhydrylase B) (O-acetylserine (thiol)-lyase B) (OAS-TL B) (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSN_ECOLI P23845 Sulfate adenylyltransferase subunit 1 (2.7.7.4) (Sulfate adenylate transferase) (SAT) (ATP-sulfurylase large subunit) (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 42 2e-07 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 42.4 bits (98), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 41/131 (31%), Positives = 61/131 (46%), Gaps = 9/131 (6%) Frame = +1 Query: 92 GITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCELAILLIDARKGVLDQTRRH 151 GIT + + TE DTPGH +T A GA ++ +L++ A GV+ Q Sbjct: 6625 GITQHIGAYHVETENGMVTFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQ---- 6792 Query: 152 SFISTLLGIKH-------LVVAINKMDLVDYSEETFTRIREDYLTFAGQLPGNL--DIRF 202 T+ I+H +VV INK+D + E R+R + L+ G LP D F Sbjct: 6793 ----TIEAIQHAKAAKVPVVVVINKIDKPNADPE---RLRTE-LSQHGILPEEWGGDSPF 6948 Query: 203 VPLSALEGDNV 213 V +SA +G + Sbjct: 6949 VHVSAKKGTGI 6981 Score = 18.9 bits (37), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +2 Query: 246 MRFPVQYVNRPNLDF 260 R PV+ VNR L F Sbjct: 5597 FRAPVEKVNRYKLKF 5641 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 15/33 (45%) Frame = +1 Query: 33 CGSVDDGKSTLIGRLLHDTRQIYEDQLSSLHND 65 C V +GK T GRL ++L LH + Sbjct: 247 CQRVAEGKFTEAGRL--------NERLMPLHKE 321 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -1 Query: 411 QNPVTGGLIFID 422 +NP T GLI +D Sbjct: 3301 KNPETRGLIQLD 3266 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSP_ECOLI P16700 Thiosulfate-binding protein (Precursor) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSQ_ECOLI P22255 3'(2'),5'-bisphosphate nucleotidase cysQ (3.1.3.7) (3'(2'),5-bisphosphonucleoside 3'(2')-phosphohydrolase) (3'-phosphoadenosine 5'-phosphate phosphatase) (PAP phosphatase) (DPNPase) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYST_ECOLI P16701 Sulfate transport system permease protein cysT (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = +2 Query: 181 RWQSFCKVVLPELSPALVAGVALS 204 RW+ +VV+P L A +S Sbjct: 4019 RWKVVSEVVMPTREITLEAAQEIS 4090 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSW_ECOLI P0AEB0 Sulfate transport system permease protein cysW (291 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +1 Query: 226 GSIRGETLSLPL 237 G I ETL LP+ Sbjct: 373 GLITAETLRLPM 408 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSX_ECOLI P20343 Putative uncharacterized protein cysX (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.56, Method: Composition-based stats. Identities = 9/19 (47%), Positives = 10/19 (52%) Frame = -1 Query: 14 NLRAAPNFNIAEDFRARAN 32 N R FNI+ DFR N Sbjct: 4174 NYRFNLVFNISRDFRFGGN 4118 Score = 16.2 bits (30), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +3 Query: 3 RHRLQHHGTC 12 R R HHG+C Sbjct: 6528 RPRRHHHGSC 6557 Score = 15.8 bits (29), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -2 Query: 64 NHRRFTNDDAC 74 N RFTND+ Sbjct: 6306 NGDRFTNDNVA 6274 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYSZ_ECOLI P0A6J3 Protein cysZ (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -1 Query: 170 LWFLFSAWMLAIQYCDY 186 ++ LFS W CDY Sbjct: 6163 VYCLFSVW*FYFPGCDY 6113 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= CYTR_ECOLI P0ACN7 HTH-type transcriptional repressor cytR (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.23, Method: Compositional matrix adjust. Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 11/99 (11%) Frame = +1 Query: 106 AHQNQQEKTF--IDLIITKQID--GMLLLGSRLPFDASIEEQRNLPPMVMANEFAPE--- 158 AH Q +K ++ +++K D G++L+ +L F + E + + + +EF+P+ Sbjct: 2041 AHLAQMKKLSYQVNDVLSKLFDDAGLILVDFKLEF--GLFENK----ITLGDEFSPDGCR 2202 Query: 159 ----LELPTVHIDNLTAAFDAVNYLYEQGHKRIGCIAGP 193 L + D V YEQ KRIG P Sbjct: 2203 LWDKKTLEKMDKDRFRGNLGGVIEAYEQVAKRIGVPLAP 2319 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/39 (23%), Positives = 15/39 (38%) Frame = -3 Query: 195 EMPLCHYRLQGYVQALRRCGIMVDPQYIARGDFTFEAGS 233 + P C+ + GY + C + P D E G+ Sbjct: 2429 KQPQCYLKRSGY*RKPAVCASAISP*IFLFADTLSEKGA 2313 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -2 Query: 277 IIGFDNIDLTQFCDP 291 + GF+ I CDP Sbjct: 6669 VFGFNVISPDMLCDP 6625 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DACA_ECOLI P0AEB2 D-alanyl-D-alanine carboxypeptidase dacA (DD-carboxypeptidase) (DD-peptidase) (3.4.16.4) (Beta-lactamase) (3.5.2.6) (Penicillin-binding protein 5) (PBP-5) (Precursor) (403 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DACB_ECOLI P24228 D-alanyl-D-alanine carboxypeptidase dacB (DD-carboxypeptidase) (DD-peptidase) (3.4.16.4) (D-alanyl-D-alanine endopeptidase) (DD-endopeptidase) (3.4.21.-) (Penicillin-binding protein 4) (PBP-4) (Precursor) (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = -1 Query: 359 LSRHNLIAPATMMQVLQYI 377 + RH++ PAT ++ YI Sbjct: 4897 VDRHHIKFPATQLRN*AYI 4841 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DACC_ECOLI P08506 D-alanyl-D-alanine carboxypeptidase dacC (DD-carboxypeptidase) (DD-peptidase) (3.4.16.4) (Penicillin-binding protein 6) (PBP-6) (Precursor) (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DACD_ECOLI P33013 D-alanyl-D-alanine carboxypeptidase dacD (DD-carboxypeptidase) (DD-peptidase) (3.4.16.4) (Penicillin-binding protein 6b) (PBP-6b) (Precursor) (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/29 (24%), Positives = 16/29 (55%) Frame = +2 Query: 315 FWMVLPKAEIPHIKAKYTLDGKELTAPIS 343 FW++ P H +++ + K+ +P+S Sbjct: 6755 FWLLRPMMGSCHRRSRPSNMLKQRKSPLS 6841 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DADA_ECOLI P0A6J5 D-amino acid dehydrogenase small subunit (1.4.99.1) (432 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.49, Method: Compositional matrix adjust. Identities = 20/92 (21%), Positives = 41/92 (44%) Frame = +1 Query: 220 FNTPVDQLLCDGEQIYGVKCGDEVIKADAYVMAFGSYSTAMLKGIVDIPVYPLKGYSLTI 279 N P+ +L +Q++ + I ++AY AFG S A L + + Y + Sbjct: 1942 LNHPLFELFLKNDQLH------DPIVSEAYCKAFGWASEAHLAQMKKL------SYQVND 2085 Query: 280 PIAQEDGAPVSTILDETYKIAITRFDNRIRVG 311 +++ ++D +K+ F+N+I +G Sbjct: 2086 VLSKLFDDAGLILVD--FKLEFGLFENKITLG 2175 Score = 16.9 bits (32), Expect = 8.6, Method: Compositional matrix adjust. Identities = 13/49 (26%), Positives = 20/49 (40%) Frame = -1 Query: 240 GDEVIKADAYVMAFGSYSTAMLKGIVDIPVYPLKGYSLTIPIAQEDGAP 288 GDE K V+ + STA+ + + + L+I I D P Sbjct: 3598 GDETSKL*GQVIGSSTSSTALTW*LTSAHISTVTPSQLSI*IRSVDWRP 3452 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DAMX_ECOLI P11557 Protein damX (428 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.7, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +1 Query: 122 SALKAPSTTSSDQTASGEKSI 142 SAL+AP T G+ S+ Sbjct: 6517 SALRAPVVTIMGHVDHGKTSL 6579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DAPA_ECOLI P0A6L2 Dihydrodipicolinate synthase (DHDPS) (4.2.1.52) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 213 4e-59 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 213 bits (541), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 101/157 (64%), Positives = 123/157 (78%) Frame = +1 Query: 136 PSRTGCDLLPETVGRLAKVKNIIGIKEATGNLTRVNQIKELVSDDFVLLSGDDASALDFM 195 PSRTGCDLLPETV RLA++ NIIG+KEATGNL R++ IK V D+F+LLSGDDA+ DF+ Sbjct: 1 PSRTGCDLLPETVVRLAQIPNIIGLKEATGNLERLSMIKPSVGDNFILLSGDDATGFDFI 180 Query: 196 QLGGHGVISVTANVAARDMAQMCKLAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWA 255 Q GG G+ISVTANVAA M ++C+ AEG F EA +N+RLMPLH +LF+E NPI VKWA Sbjct: 181 QKGGQGIISVTANVAAGGMTELCQRVAEGKFTEAGRLNERLMPLHKELFIEANPIAVKWA 360 Query: 256 CKELGLVATDTLRLPMTPITDSGRETVRAALKHAGLL 292 CK LGL+ +TLRLPMT +T ++ V ALK AGLL Sbjct: 361 CKRLGLITAETLRLPMTSLTLVNQKRVEDALKSAGLL 471 Score = 20.0 bits (40), Expect = 0.57, Method: Compositional matrix adjust. Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 3/48 (6%) Frame = +1 Query: 218 CK---LAAEGHFAEARVINQRLMPLHNKLFVEPNPIPVKWACKELGLV 262 CK A+E H A+ + ++ ++ + +KLF + I V + E GL Sbjct: 2014 CKAFGWASEAHLAQMKKLSYQVNDVLSKLFDDAGLILVDFKL-EFGLF 2154 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 13/27 (48%) Frame = +2 Query: 108 NRPSQEGLYQHFKAIAEHTDLPQILYN 134 N PSQ+ + + +A Q LYN Sbjct: 6161 NSPSQKQIVKKRGLLAVKAKESQALYN 6241 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = +3 Query: 12 PMDEKGNVCR 21 P GNVCR Sbjct: 1233 PTPSFGNVCR 1262 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DAPB_ECOLI P04036 Dihydrodipicolinate reductase (DHPR) (1.3.1.26) (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DAPD_ECOLI P0A9D8 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (2.3.1.117) (Tetrahydrodipicolinate N-succinyltransferase) (THP succinyltransferase) (Tetrahydropicolinate succinylase) (THDP succinyltransferase) (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DAPE_ECOLI P0AED7 Succinyl-diaminopimelate desuccinylase (SDAP desuccinylase) (3.5.1.18) (N-succinyl-LL-2,6-diaminoheptanedioate amidohydrolase) (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.30, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 13/27 (48%) Frame = -3 Query: 285 DWWLSGQPFLTARGKLVDAVVNAVEHY 311 W LSG P + R +LV + + + Sbjct: 791 QWTLSGNPLIVPRVELVAECLTVCQRH 711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DAPF_ECOLI P0A6K1 Diaminopimelate epimerase (DAP epimerase) (5.1.1.7) (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -1 Query: 256 HPLYMTGPAVHVY 268 HPL M P H+Y Sbjct: 2629 HPLQMKRPYPHLY 2591 Score = 16.9 bits (32), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +1 Query: 156 GNPHCV 161 NPHCV Sbjct: 3457 ANPHCV 3474 Score = 16.9 bits (32), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -3 Query: 174 TLGPVLESHERFP 186 TLG ++ S +FP Sbjct: 125 TLGFIMLSRSKFP 87 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DBHA_ECOLI P0ACF0 DNA-binding protein HU-alpha (NS2) (HU-2) (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +3 Query: 12 EKAELS 17 EKAELS Sbjct: 2058 EKAELS 2075 Score = 13.9 bits (24), Expect = 9.4, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 63 PQTGKEIKIAAANV 76 P+T IK AN+ Sbjct: 2729 PKTRLTIKNNVANI 2688 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DBHB_ECOLI P0ACF4 DNA-binding protein HU-beta (NS1) (HU-1) (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DBPA_ECOLI P21693 ATP-independent RNA helicase dbpA (3.6.1.-) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCDA_ECOLI P00861 Diaminopimelate decarboxylase (DAP decarboxylase) (4.1.1.20) (420 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCD_ECOLI P28248 Deoxycytidine triphosphate deaminase (dCTP deaminase) (3.5.4.13) (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCEA_ECOLI P69908 Glutamate decarboxylase alpha (GAD-alpha) (4.1.1.15) (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.31, Method: Compositional matrix adjust. Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 2/22 (9%) Frame = +2 Query: 401 LRGWQVPAFT--LGGEATDIVV 420 +RG +V A + LGGE DIV+ Sbjct: 4631 MRGARVQAVSNELGGERIDIVL 4696 Score = 20.4 bits (41), Expect = 0.74, Method: Compositional matrix adjust. Identities = 25/86 (29%), Positives = 34/86 (39%), Gaps = 9/86 (10%) Frame = +3 Query: 344 NASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRL-- 401 + SYQV+A L E PY + G+ + F +D YT Y L ER+ L Sbjct: 3519 DVSYQVSAVLDVEEPITCPYNLEVSS---PGLERLLFTAED-----YTDY-LGERINLTL 3671 Query: 402 -------RGWQVPAFTLGGEATDIVV 420 R WQ + GE + V Sbjct: 3672 RIAMQNRRKWQGIIKAVDGEMIIVTV 3749 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +1 Query: 412 GGEATDIVVMRIMCRRGF 429 G +ATDIVV+ + G Sbjct: 6730 GAQATDIVVLVVAADDGV 6783 Score = 16.9 bits (32), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +2 Query: 290 RDEEALPQELV 300 RD+ ALP+ +V Sbjct: 1193 RDDSALPRLIV 1225 Score = 16.9 bits (32), Expect = 9.5, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = -3 Query: 159 CGPVQICWHKFARYWDVEL 177 CG +C+H+ A Y V+L Sbjct: 4406 CGHQGVCFHE-AAYPPVQL 4353 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCEB_ECOLI P69910 Glutamate decarboxylase beta (GAD-beta) (4.1.1.15) (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.31, Method: Compositional matrix adjust. Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 2/22 (9%) Frame = +2 Query: 401 LRGWQVPAFT--LGGEATDIVV 420 +RG +V A + LGGE DIV+ Sbjct: 4631 MRGARVQAVSNELGGERIDIVL 4696 Score = 20.4 bits (41), Expect = 0.75, Method: Compositional matrix adjust. Identities = 25/86 (29%), Positives = 34/86 (39%), Gaps = 9/86 (10%) Frame = +3 Query: 344 NASYQVAAYLADEIAKLGPYEFICTGRPDEGIPAVCFKLKDGEDPGYTLYDLSERLRL-- 401 + SYQV+A L E PY + G+ + F +D YT Y L ER+ L Sbjct: 3519 DVSYQVSAVLDVEEPITCPYNLEVSS---PGLERLLFTAED-----YTDY-LGERINLTL 3671 Query: 402 -------RGWQVPAFTLGGEATDIVV 420 R WQ + GE + V Sbjct: 3672 RIAMQNRRKWQGIIKAVDGEMIIVTV 3749 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +1 Query: 412 GGEATDIVVMRIMCRRGF 429 G +ATDIVV+ + G Sbjct: 6730 GAQATDIVVLVVAADDGV 6783 Score = 16.9 bits (32), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +2 Query: 290 RDEEALPQELV 300 RD+ ALP+ +V Sbjct: 1193 RDDSALPRLIV 1225 Score = 16.9 bits (32), Expect = 9.7, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = -3 Query: 159 CGPVQICWHKFARYWDVEL 177 CG +C+H+ A Y V+L Sbjct: 4406 CGHQGVCFHE-AAYPPVQL 4353 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCLZ_ECOLI P52095 Lysine decarboxylase, constitutive (LDC) (4.1.1.18) (713 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCM_ECOLI P0AED9 DNA-cytosine methyltransferase (2.1.1.37) (M.EcoDcm) (472 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.66, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%) Frame = -3 Query: 414 EAPGEAKFRIPVSDTQAYRQFGNS 437 E+P + RIP D+ R+ G++ Sbjct: 6941 ESPPHSSGRIPC*DSSVLRRSGSA 6870 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = -2 Query: 442 VFAAVAKLLEPKIKQAVALRQQ 463 VFA+ + +E A+ALR Sbjct: 4782 VFASSSTTIEATSAGAIALRTN 4717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCOR_ECOLI P21169 Ornithine decarboxylase, constitutive (4.1.1.17) (711 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.5, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = +2 Query: 245 GGIDAHCFNEEYLRQQIRDVAPE 267 G A C +YL Q+R + P Sbjct: 3533 GECRARC*RADYLSLQLRGLIPR 3601 Score = 18.5 bits (36), Expect = 4.3, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 7/27 (25%) Frame = -3 Query: 496 DAETGEYSDFGV-------PATILAHY 515 + E S+F V PAT++ HY Sbjct: 5429 EVEISAASNFMVTSVMLFLPATVITHY 5349 Score = 17.7 bits (34), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -2 Query: 191 TSAANKVVTNA 201 T+ NK++TNA Sbjct: 153 TAQQNKIITNA 121 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCOS_ECOLI P24169 Ornithine decarboxylase, inducible (4.1.1.17) (732 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.0, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = -1 Query: 495 KLLLTTPGIDARNGEYEA 512 K LLT G RNG Y + Sbjct: 3910 KNLLTWKGFLIRNGFYNS 3857 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCP_ECOLI P24171 Peptidyl-dipeptidase dcp (3.4.15.5) (Dipeptidyl carboxypeptidase) (681 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 9.8, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = -1 Query: 504 INEHWATHPQ 513 +N H++ HP+ Sbjct: 469 VNPHFSRHPR 440 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCRB_ECOLI P0AEE1 Protein dcrB (Precursor) (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCTA_ECOLI P0A830 Aerobic C4-dicarboxylate transport protein (428 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCTR_ECOLI P37195 HTH-type transcriptional regulator dctR (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +1 Query: 48 LMNNVFHSNFLTQIERL 64 +MN + + TQ+ERL Sbjct: 1774 IMNRLEAAGIPTQMERL 1824 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 62 ERLKPVHVIIF 72 ERL P+H +F Sbjct: 295 ERLMPLHKELF 327 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCUA_ECOLI P0ABN5 Anaerobic C4-dicarboxylate transporter dcuA (433 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCUB_ECOLI P0ABN9 Anaerobic C4-dicarboxylate transporter dcuB (446 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.065 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.065, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -2 Query: 378 YIVASAPACYGYYIL 392 YI + P+CY YY L Sbjct: 5394 YICHAVPSCYSYYAL 5350 Score = 22.3 bits (46), Expect = 0.18, Method: Compositional matrix adjust. Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 1/22 (4%) Frame = -2 Query: 181 STLIGILAIGI-FSWFRGKDLD 201 STLI I I +W+RG+DL+ Sbjct: 3054 STLIIIQKQAISMNWYRGRDLN 2989 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 385 ACYGYYILP 393 ACY YY+ P Sbjct: 2746 ACYSYYLRP 2720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCUC_ECOLI P0ABP3 Anaerobic C4-dicarboxylate transporter dcuC (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.2, Method: Compositional matrix adjust. Identities = 10/44 (22%), Positives = 22/44 (50%), Gaps = 3/44 (6%) Frame = -1 Query: 269 HIITILVICMLIA---SILEFLRSFNTQKVFSGLEVAYRGMADA 309 H++ +LVI + +A S+ + + + Q G ++ R + A Sbjct: 5536 HVLNVLVIFLFLAE*QSLFQIFLNLHQQTAV*GDQLKLRSLLPA 5405 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCUD_ECOLI P45428 Putative cryptic C4-dicarboxylate transporter dcuD (455 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.082 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.082, Method: Compositional matrix adjust. Identities = 38/145 (26%), Positives = 54/145 (37%), Gaps = 20/145 (13%) Frame = +2 Query: 96 SRAMVSLLSRPLKLIRSPYIILSATYVIGQIMAQFITSASGLGMLLM--------VTLFP 147 +RAM++ L L IRS T IG++ Q S L L++ L P Sbjct: 1085 NRAMLNKLIEGLDKIRSNSNNAQNTDKIGRLEVQAARDDSALPRLIVRAPYAIVWQRLPP 1264 Query: 148 TLVSLGVS---RLSAVAVIATT----MSIEWGILETNSIFAAQVAGMKIATYFFHYQLPV 200 L +G++ R IA T S +W L AQ +K + YQL V Sbjct: 1265 ALAKIGMTVTKRDRQQGNIAVTYSPINSRDWDAL------GAQDPKLKSGS----YQLQV 1414 Query: 201 A-----SCVIISVAISHFFVQRAFD 220 S V + + H Q+ D Sbjct: 1415 GDFGNRSSVQFTDSKGHTLNQQQND 1489 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -3 Query: 412 PITAVVVVTSGIAGVSP 428 P+TA++ +S VSP Sbjct: 6338 PLTAILFASSATVTVSP 6288 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = -1 Query: 192 YFFHYQLPVASCVIISVA 209 YFFH C + SVA Sbjct: 5620 YFFHRSSEHLKCSVFSVA 5567 Score = 17.7 bits (34), Expect = 5.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = -1 Query: 439 MAVGFVVNMIATITLF 454 + +GF+ +A ITLF Sbjct: 619 IKIGFITAHLAFITLF 572 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCUP_ECOLI P29680 Uroporphyrinogen decarboxylase (URO-D) (UPD) (4.1.1.37) (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +2 Query: 295 SMLYAPPA 302 ++LYAPP+ Sbjct: 6515 NLLYAPPS 6538 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCUR_ECOLI P0AD01 Transcriptional regulatory protein dcuR (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.21, Method: Compositional matrix adjust. Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 1/66 (1%) Frame = +2 Query: 73 NARCKSDVIVISSAADAATIKDSLHYGVVDYLI-KPFQASRFEEALTGWRQKKMALEKHQ 131 NA ++V I DA T+ ++ G I + Q R L+GW M + + + Sbjct: 4727 NAMAPAEVASIVVDEDAKTMNIAVEEGNSAQAIGRNGQNVRLVSQLSGWELNVMTINELK 4906 Query: 132 YYDQAE 137 QAE Sbjct: 4907 EKCQAE 4924 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = +2 Query: 83 ISSAADAATIKDSLHYGVVDYLIK 106 I SAA+ + + +GV YL K Sbjct: 3245 ILSAANRVQLYQTPSFGVFCYLKK 3316 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/19 (26%), Positives = 10/19 (52%) Frame = -1 Query: 27 FQCCGTASTLEKAKEIIFN 45 F+C G+ + ++FN Sbjct: 4204 FRCLGSYAVKNYRFNLVFN 4148 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 13/28 (46%) Frame = -1 Query: 189 NISRVSCRKYLIWLVNCHILFTSIHYGV 216 N S R Y+ HIL ++ +GV Sbjct: 4417 NTSNAVTRAYV--FTRQHILLSNYSFGV 4340 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +3 Query: 26 GFQCCG 31 GF CCG Sbjct: 6753 GFGCCG 6770 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCUS_ECOLI P0AEC8 Sensor protein dcuS (2.7.13.3) (543 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DCYD_ECOLI P76316 D-cysteine desulfhydrase (4.4.1.15) (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 316 GGAPALFAYHPHV 328 GGA + F H H+ Sbjct: 6534 GGA*SRFTRHSHI 6496 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 14/48 (29%), Positives = 19/48 (39%) Frame = +1 Query: 272 VKLLARLEGILLDPVYTGKAMAGLIDGISQKRFKDEGPILFIHTGGAP 319 +KLLA +D + A AGL + + E IL H P Sbjct: 5398 IKLLAAEISTSVDRLIQQFADAGLKKSETSSVTQQEKEILLAHLKHEP 5541 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDG_ECOLI P0ACV2 Protein ddg (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 8/11 (72%) Frame = +1 Query: 72 AEEREKMIAEN 82 AEE KM AEN Sbjct: 5959 AEEARKMAAEN 5991 Score = 16.5 bits (31), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 13/24 (54%) Frame = +3 Query: 142 VMGLCQPMMATYRPHNNQLMEWVQ 165 V+ P++ NN++M W++ Sbjct: 1431 VVACNSPILKGIH*INNKMMRWLR 1502 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDLA_ECOLI P0A6J8 D-alanine--D-alanine ligase A (6.3.2.4) (D-alanylalanine synthetase A) (D-Ala-D-Ala ligase A) (364 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 10/23 (43%) Frame = +1 Query: 47 GQWHVSDASNYLLNADDPAHIAL 69 G +HV + + D P H A Sbjct: 6643 GAYHVETENGMVTFLDTPGHAAF 6711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDLB_ECOLI P07862 D-alanine--D-alanine ligase B (6.3.2.4) (D-alanylalanine synthetase B) (D-Ala-D-Ala ligase B) (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 266 FYLLEANTSPGMTS 279 F+L + TSP T+ Sbjct: 6153 FFLFGSFTSPAATT 6112 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDPA_ECOLI P76128 Probable D,D-dipeptide-binding periplasmic protein ddpA (Precursor) (516 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDPB_ECOLI P77308 Probable D,D-dipeptide transport system permease protein ddpB (340 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.53, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 14/28 (50%) Frame = -3 Query: 158 YGHLQILPGGGRLDDWLDPPTHVTGFYL 185 Y H+ ++P G R + + GFYL Sbjct: 1202 YRHVPLVPLGDRFCLCFEHYCYYCGFYL 1119 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 141 GISTPAFW 148 GIS+P FW Sbjct: 6942 GISSPLFW 6919 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 5/11 (45%) Frame = -1 Query: 123 AVWRNRWLDHL 133 W N + DH Sbjct: 4057 TCWHNHFTDHF 4025 Score = 16.2 bits (30), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = -2 Query: 329 WIDPRIGRGG 338 W DP IGR Sbjct: 6789 WHDPIIGRNN 6760 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDPC_ECOLI P77463 Probable D,D-dipeptide transport system permease protein ddpC (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 25 WMLKGSPLTV 34 W L G+PL V Sbjct: 788 WTLSGNPLIV 759 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDPD_ECOLI P77268 Probable D,D-dipeptide transport ATP-binding protein ddpD (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDPF_ECOLI P77622 Probable D,D-dipeptide transport ATP-binding protein ddpF (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +3 Query: 68 PSHGQYIRSGSQR 80 P H RSGS+R Sbjct: 6042 PCHYLTTRSGSRR 6080 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DDPX_ECOLI P77790 D-alanyl-D-alanine dipeptidase (D-Ala-D-Ala dipeptidase) (3.4.13.22) (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = -1 Query: 41 LLHKDAITALAKSISIAQL 59 LLH + ITA I I + Sbjct: 994 LLHTNLITACKGDIFIGSV 938 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEAD_ECOLI P0A9P6 Cold-shock DEAD box protein A (3.6.1.-) (ATP-dependent RNA helicase deaD) (629 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.12, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 16/28 (57%) Frame = +2 Query: 368 IPEVELPNAELLGKRRLEKFAAKVQQQL 395 +PE ELP + K+RL++ + Q L Sbjct: 5030 VPESELPEIDSFDKKRLQELRDRAQNVL 5113 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEDA_ECOLI P0ABP6 Protein dedA (Protein DSG-1) (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEDD_ECOLI P09549 Protein dedD (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEF_ECOLI P0A6K3 Peptide deformylase (PDF) (3.5.1.88) (Polypeptide deformylase) (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.8, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = -3 Query: 86 GIEEGCLSIPEQRALVPRAE 105 G E+G + RAL P+ Sbjct: 3011 GTEDGI*TRKPNRALPPQGS 2952 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEGP_ECOLI P0C0V0 Protease do (3.4.21.-) (Precursor) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -3 Query: 81 PFCQEGSPFQSSP 93 PFC + P SSP Sbjct: 188 PFCIKSKPVASSP 150 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 5/35 (14%) Frame = +2 Query: 351 RAQVGTMPVGSKL-----TLGLLRDGKQVNVNLEL 380 R Q+ G++L +LGL + K V N+E+ Sbjct: 971 RYQISVQQQGNQLALVVKSLGLQQQEKMVTSNIEI 1075 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEGQ_ECOLI P39099 Protease degQ (3.4.21.-) (Precursor) (455 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEGS_ECOLI P0AEE3 Protease degS (3.4.21.-) (Precursor) (355 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEOB_ECOLI P0A6K6 Phosphopentomutase (5.4.2.7) (Phosphodeoxyribomutase) (407 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.77, Method: Compositional matrix adjust. Identities = 7/27 (25%), Positives = 11/27 (40%) Frame = +2 Query: 351 DPTWTGTDHTREHIPVLVYGPKVKPGS 377 P+W R H + PK++ G Sbjct: 6539 SPSWVMLIMVRLHCLIAFVRPKLRQGK 6619 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEOC_ECOLI P0A6L0 Deoxyribose-phosphate aldolase (4.1.2.4) (Phosphodeoxyriboaldolase) (Deoxyriboaldolase) (DERA) (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -1 Query: 39 PVGNTAAICI 48 P+G+ ICI Sbjct: 928 PIGSERLICI 899 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEOD_ECOLI P0ABP8 Purine nucleoside phosphorylase deoD-type (PNP) (2.4.2.1) (Inosine phosphorylase) (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 102 RDVVIG 107 RDV+IG Sbjct: 6274 RDVIIG 6291 Score = 15.8 bits (29), Expect = 8.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 67 IPSCSI 72 +PSCSI Sbjct: 3095 LPSCSI 3078 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DEOR_ECOLI P0ACK5 Deoxyribose operon repressor (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.12, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 17/27 (62%), Gaps = 1/27 (3%) Frame = +3 Query: 163 NFCPDIAFYSAAGVHVSKGATC-FNLE 188 + C D+++ +A + V + TC +NLE Sbjct: 3507 DMCADVSYQVSAVLDVEEPITCPYNLE 3587 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = -2 Query: 106 WIIEAIDNEIPFTAVCYSL 124 W I +DN C+S+ Sbjct: 6867 WFIYFVDNNDNGDFRCFSM 6811 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DGAL_ECOLI P0AEE5 D-galactose-binding periplasmic protein (GBP) (D-galactose/ D-glucose-binding protein) (GGBP) (Precursor) (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DGOA_ECOLI Q6BF16 2-dehydro-3-deoxy-6-phosphogalactonate aldolase (4.1.2.21) (6-phospho-2-dehydro-3-deoxygalactonate aldolase) (2-oxo-3-deoxygalactonate 6-phosphate aldolase) (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = +2 Query: 39 PLNSPQWE 46 P+NS W+ Sbjct: 1337 PINSRDWD 1360 Score = 15.4 bits (28), Expect = 9.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = +3 Query: 95 RRAVGYGMTVCPGC 108 R GYG + GC Sbjct: 2589 R*RCGYGRFIWSGC 2630 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DGOD_ECOLI Q6BF17 D-galactonate dehydratase (GalD) (4.2.1.6) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DGOK_ECOLI P31459 2-dehydro-3-deoxygalactonokinase (2.7.1.58) (2-keto-3-deoxy-galactonokinase) (2-oxo-3-deoxygalactonate kinase) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DGOR_ECOLI P31460 Galactonate operon transcriptional repressor (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 8/18 (44%) Frame = +2 Query: 76 YLDTDVLQWVLENDYDPR 93 YL+ VL W PR Sbjct: 2954 YLEVVVLDWAYGFKSRPR 3007 Score = 16.2 bits (30), Expect = 7.3, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 7/12 (58%) Frame = +1 Query: 63 YRGAFVAPRNQW 74 +RG + +N W Sbjct: 3289 FRGFLLFEKNDW 3324 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DGOT_ECOLI P0AA76 D-galactonate transporter (430 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DGTP_ECOLI P15723 Deoxyguanosinetriphosphate triphosphohydrolase (dGTPase) (dGTP triphosphohydrolase) (3.1.5.1) (505 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = -3 Query: 62 AVRTRLTHSMEV 73 AVR R+THS+ + Sbjct: 1898 AVRLRMTHSIGI 1863 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = -1 Query: 97 YGLDELTGPFESIVEMSCLM 116 +G + ++ PF +I C+M Sbjct: 61 WGFELISPPFRAINHNRCVM 2 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -2 Query: 25 EHEILRIFES 34 +H+I+RIF S Sbjct: 1683 QHQIIRIFSS 1654 Score = 17.3 bits (33), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 13 HRRYRSPQGV 22 HR+ RSP+G Sbjct: 1156 HRQNRSPRGT 1185 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHAK_ECOLI P76015 PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK (2.7.-.-) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -2 Query: 176 LGRKLNNQGHSIGIALGACT 195 +GR NNQ H I +CT Sbjct: 6774 IGR--NNQNHDICCLSTSCT 6721 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = +1 Query: 1 MKKLINDVQDVL 12 MKKL V DVL Sbjct: 2056 MKKLSYQVNDVL 2091 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHAL_ECOLI P76014 PTS-dependent dihydroxyacetone kinase, ADP-binding subunit dhaL (2.7.-.-) (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 78 GASGPLFGT 86 GAS LFG+ Sbjct: 2626 GASSTLFGS 2652 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHAM_ECOLI P37349 PTS-dependent dihydroxyacetone kinase, phosphotransferase subunit dhaM (Phosphocarrier protein HPr) (Protein H) (Phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system EIIA component) (473 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +1 Query: 419 KGICLSAGSPVS 430 +G+C AGS S Sbjct: 4615 RGMCWDAGSTCS 4650 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHAR_ECOLI P76016 PTS-dependent dihydroxyacetone kinase operon regulatory protein (639 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHAS_ECOLI P0A9Q9 Aspartate-semialdehyde dehydrogenase (ASA dehydrogenase) (ASADH) (1.2.1.11) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = -2 Query: 76 DYTNEIYPKLRESGWQGY 93 DY+N + L S W + Sbjct: 6270 DYSNWLIETLL*SAWLSF 6217 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHE4_ECOLI P00370 NADP-specific glutamate dehydrogenase (NADP-GDH) (1.4.1.4) (447 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHG_ECOLI P15877 Quinoprotein glucose dehydrogenase (1.1.5.2) (Glucose dehydrogenase [pyrroloquinoline-quinone]) (796 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.7, Method: Compositional matrix adjust. Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 16/57 (28%) Frame = +2 Query: 156 PAEAISPVADQDWP-------------AYGRNQEGQRF-SPLK--QINADNVHNLKE 196 PAE S V D+D A GRN + R S L ++N ++ LKE Sbjct: 4739 PAEVASIVVDEDAKTMNIAVEEGNSAQAIGRNGQNVRLVSQLSGWELNVMTINELKE 4909 Score = 19.2 bits (38), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = +3 Query: 677 LKTNEVVWKKRIGT 690 K +E+ WKK IGT Sbjct: 5589 FKCSELRWKK*IGT 5630 Score = 18.9 bits (37), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 161 SPVADQDWPAYG 172 SP+ +DW A G Sbjct: 1334 SPINSRDWDALG 1369 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHNA_ECOLI P00393 NADH dehydrogenase (1.6.99.3) (434 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.5, Method: Compositional matrix adjust. Identities = 11/40 (27%), Positives = 16/40 (40%) Frame = +1 Query: 131 TPGVKENCIFLDNPHQARRFHQEMLNLFLKYSANLGANGK 170 T K CI DNP + L+Y A++ A + Sbjct: 622 TSAKKAQCITGDNP--------AITAWNLRYCASITARCR 717 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +2 Query: 263 EYIEADLMVWAAGIKA 278 Y+E ++ WA G K+ Sbjct: 2951 RYLEVVVLDWAYGFKS 2998 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/27 (22%), Positives = 12/27 (44%) Frame = -1 Query: 333 AAHQMATCAMNNILAQMNGKPLKNYQY 359 + A NN+ + +KNY++ Sbjct: 4243 CSFSFAYFLYNNLFRCLGSYAVKNYRF 4163 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHPS_ECOLI P0AC13 Dihydropteroate synthase (DHPS) (2.5.1.15) (Dihydropteroate pyrophosphorylase) (282 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHSA_ECOLI P0AC41 Succinate dehydrogenase flavoprotein subunit (1.3.99.1) (588 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.0, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 14/25 (56%) Frame = +3 Query: 210 QSTTNAHINTGDGVGMAIRAGVPVQ 234 QST +I+ DGV + + A V Q Sbjct: 3459 QSTLRIYIDNCDGVTVDMCADVSYQ 3533 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHSB_ECOLI P07014 Succinate dehydrogenase iron-sulfur subunit (1.3.99.1) (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHSC_ECOLI P69054 Succinate dehydrogenase cytochrome b556 subunit (Cytochrome b-556) (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.91, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -3 Query: 53 SSPEGFEQASAIMGSFF 69 + P+G ++ I SFF Sbjct: 3362 THPQGIKKKGLIAQSFF 3312 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DHSD_ECOLI P0AC44 Succinate dehydrogenase hydrophobic membrane anchor subunit (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DIAA_ECOLI P66817 DnaA initiator-associating protein diaA (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.20, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 1/28 (3%) Frame = +1 Query: 89 IANDRLHDEVYAKQV-RALGHAGDVLLA 115 + ND+LHD + ++ +A G A + LA Sbjct: 1969 LKNDQLHDPIVSEAYCKAFGWASEAHLA 2052 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = +2 Query: 51 TSAANAQHFAASMINRF 67 TS QH+ +M+N+ Sbjct: 1058 TSNIEIQHYNRAMLNKL 1108 Score = 16.5 bits (31), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 7/27 (25%) Frame = -2 Query: 46 CC-------GNGTSAANAQHFAASMIN 65 CC GTS++ HF S+++ Sbjct: 993 CCTLI**RPAKGTSSSARFHFIQSVVS 913 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DICA_ECOLI P06966 HTH-type transcriptional regulator dicA (Repressor protein of division inhibition gene dicA) (135 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.8, Method: Composition-based stats. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +3 Query: 2 ETKNLTIGERIRYRRK 17 E NLT+ ++ RRK Sbjct: 3651 ERINLTLRIAMQNRRK 3698 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DICB_ECOLI P09557 Division inhibition protein dicB (62 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.9, Method: Compositional matrix adjust. Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 5/40 (12%) Frame = -3 Query: 3 TLLPNVNTSEGCFEIGVT-----ISNPVFTEDAINKRKQE 37 +++PN TSE + +T ISN +FT ++++ + Sbjct: 1931 SVIPNRFTSEPAVRLRMTHSIGIISN-LFTNASLSESSRS 1815 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DICC_ECOLI P06965 Repressor protein of division inhibition gene dicB (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.3, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 68 GRLNNENH 75 GR NN+NH Sbjct: 6771 GR-NNQNH 6751 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DIND_ECOLI P23840 DNA-damage-inducible protein D (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DINF_ECOLI P28303 DNA-damage-inducible protein F (459 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 3/78 (3%) Frame = +1 Query: 278 ARLGSDIIAVNAVLMTLLTFTAYALDGFAYAVEAHSGQAYGARDGSQLLDVWRAA---CR 334 R+G+ + V L++ AL A G ++GA S L + R Sbjct: 2500 GRIGTTMYVTLLVFFLLISIGLIALIVLQQGKGADMGASFGAGASSTLFGSSGSGNFMTR 2679 Query: 335 QSGIVALLFSVVYLLAGE 352 + I+A LF +V L+ G Sbjct: 2680 MTAILATLFFIVSLVLGN 2733 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DING_ECOLI P27296 Probable ATP-dependent helicase dinG (3.6.1.-) (DNA-damage-inducible protein G) (716 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/18 (27%), Positives = 13/18 (72%) Frame = -2 Query: 623 VITEGEWLKSLNRYPFEV 640 +IT+G+++ ++ FE+ Sbjct: 2181 LITQGDFIFKQAKFQFEI 2128 Score = 18.5 bits (36), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 198 NCYYYRECPF 207 NCY +R C F Sbjct: 4798 NCYVHRFCVF 4769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DINI_ECOLI P0ABR1 DNA-damage-inducible protein I (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 8.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 8.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%), Gaps = 2/15 (13%) Frame = +2 Query: 50 LSVIG--ATKEDKQR 62 L+ IG TK D+Q+ Sbjct: 1268 LAKIGMTVTKRDRQQ 1312 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DINJ_ECOLI Q47150 DNA-damage-inducible protein J (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 9.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +1 Query: 12 DEDLKNQAADVLAGM 26 D+D K ADV++ + Sbjct: 520 DKDNKRFVADVVSRL 564 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DINQ_ECOLI A5A624 Uncharacterized protein dinQ (42 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DJLA_ECOLI P31680 DnaJ-like protein djlA (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 12/25 (48%) Frame = -3 Query: 110 PLREKMRQFRSVCFGRFDLIRMFLE 134 PL+E + CF + I ++L Sbjct: 3257 PLKESLGMTSDKCFFKSKSISVYLS 3183 Score = 16.2 bits (30), Expect = 9.0, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = -2 Query: 120 SVCFGRFDL 128 + CFG+F Sbjct: 288 TACFGKFTF 262 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DJLB_ECOLI P77381 Uncharacterized J domain-containing protein djlB (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.2, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = +1 Query: 109 DELRWSLCTIAMNTAHLSFEC 129 D +WS CT++ + L C Sbjct: 4822 DWAQWSKCTLSFSAEWLGT*C 4884 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DJLC_ECOLI P77359 Uncharacterized J domain-containing protein djlC (483 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.6, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 9/16 (56%) Frame = +3 Query: 261 RLYCGEGESLLADLCA 276 R+Y + + D+CA Sbjct: 3471 RIYIDNCDGVTVDMCA 3518 Score = 17.7 bits (34), Expect = 5.9, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -1 Query: 121 EARYLSLNCASLLAERLNWH 140 E RY+ LL+ RLN H Sbjct: 2308 EPRYV*QLAHRLLSHRLNCH 2249 Score = 17.3 bits (33), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 450 DEGEKPQSITSI 461 D+G PQ+I +I Sbjct: 6772 DDGVMPQTIEAI 6807 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DKGA_ECOLI Q46857 2,5-diketo-D-gluconic acid reductase A (2,5-DKG reductase A) (2,5-DKGR A) (25DKGR-A) (1.1.1.274) (AKR5C) (275 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 8/53 (15%) Frame = +1 Query: 129 EGLIKSIGV----CNFQIHHLQRLIDETGVTPVINQIELHPL----MQQRQLH 173 E L+K + + C + L+ G+T NQ+ HPL ++ QLH Sbjct: 1837 EALVKRLEMIPIECVIRNRTAGSLVKRLGITE--NQVLNHPLFELFLKNDQLH 1989 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DKGB_ECOLI P30863 2,5-diketo-D-gluconic acid reductase B (2,5-DKG reductase B) (2,5-DKGR B) (25DKGR-B) (1.1.1.274) (AKR5D) (267 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DKSA_ECOLI P0ABS1 DnaK suppressor protein (151 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 4/16 (25%), Positives = 9/16 (56%) Frame = -3 Query: 113 YCESCGVEIGIRRLEA 128 YC CG + ++ + + Sbjct: 1145 YCYYCGFYLSLQSIYS 1098 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DLDH_ECOLI P0A9P0 Dihydrolipoyl dehydrogenase (1.8.1.4) (Dihydrolipoamide dehydrogenase) (E3 component of pyruvate and 2-oxoglutarate dehydrogenases complexes) (Glycine cleavage system L protein) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 147 SRPIQLPF 154 S+PIQLP Sbjct: 329 SKPIQLPL 352 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DLD_ECOLI P06149 D-lactate dehydrogenase (1.1.1.28) (Respiratory D-lactate dehydrogenase) (571 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.89, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 15/29 (51%) Frame = +1 Query: 84 GSTPNGNDYDRDVVIISTLRLDKLHVLGK 112 GS+ +GN R I++TL VLG Sbjct: 2647 GSSGSGNFMTRMTAILATLFFIVSLVLGN 2733 Score = 18.5 bits (36), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +1 Query: 242 RYNADPDRL 250 + NADP+RL Sbjct: 6862 KPNADPERL 6888 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DLGD_ECOLI P37672 2,3-diketo-L-gulonate reductase (2,3-DKG reductase) (1.1.1.130) (3-dehydro-L-gulonate 2-dehydrogenase) (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 13/21 (61%) Frame = +3 Query: 302 LPGHEFTTLLAENRRNGITVD 322 +PG + T + + +G+TVD Sbjct: 3447 IPGRQSTLRIYIDNCDGVTVD 3509 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DLHH_ECOLI P56262 Putative carboxymethylenebutenolidase (3.1.1.45) (Dienelactone hydrolase) (DLH) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 10/11 (90%) Frame = +2 Query: 202 GQDNSIPQESV 212 GQ++ +P+E++ Sbjct: 4358 GQEDMLPRENI 4390 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DMA_ECOLI P0AEE8 DNA adenine methylase (2.1.1.72) (M.EcoDam) (Deoxyadenosyl-methyltransferase) (DNA adenine methyltransferase) (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.33, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 14/25 (56%) Frame = -1 Query: 104 PFRRAVLFLYLNRYGYNGLCRYNLR 128 PFR ++ ++YG N + ++ R Sbjct: 1639 PFRDTTRLIFASQYGSNSVIIFDSR 1565 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 228 HDTMLTREWY 237 HD +LTR Y Sbjct: 6187 HDLLLTRRVY 6158 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DMSA_ECOLI P18775 Anaerobic dimethyl sulfoxide reductase chain A (DMSO reductase) (1.8.99.-) (Precursor) (814 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -3 Query: 226 PSDIENSKLVVLFGNNPGET 245 PS +S V+LF N P + Sbjct: 2195 PSGENSSPKVILFSNKPNSS 2136 Score = 18.9 bits (37), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 13/28 (46%) Frame = +1 Query: 735 GIHNGDKVRIFNDRGEVHIEAKVTPRMM 762 G +NG +I ND+ A V R+ Sbjct: 484 GKYNGYITKISNDKDNKRFVADVVSRLF 567 Score = 18.1 bits (35), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +3 Query: 57 KVIWSACTVN 66 + IWS C +N Sbjct: 2610 RFIWSGCLLN 2639 Score = 17.7 bits (34), Expect = 8.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +3 Query: 121 KYPMKRVGAR 130 +YP +RVG R Sbjct: 6909 RYPARRVGRR 6938 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DMSB_ECOLI P18776 Anaerobic dimethyl sulfoxide reductase chain B (DMSO reductase iron-sulfur subunit) (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.4, Method: Compositional matrix adjust. Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 1/50 (2%) Frame = +1 Query: 89 DGFVVVDEDVCIGCRYCHMACP-YGAPQYNETKGHMTKCDGCYDRVAEGK 137 D F+++ D G + + N G MT+ C RVAEGK Sbjct: 130 DNFILLSGDDATGFDFIQKGGQGIISVTANVAAGGMTEL--C-QRVAEGK 270 Score = 16.2 bits (30), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 111 YGAPQY 116 YG+PQY Sbjct: 5317 YGSPQY 5334 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = -3 Query: 164 DLAAVAPLPRAHFT 177 + VAP P HF Sbjct: 1520 SMQRVAPQPAHHFV 1479 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DMSC_ECOLI P18777 Anaerobic dimethyl sulfoxide reductase chain C (DMSO reductase anchor subunit) (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DMSD_ECOLI P69853 Twin-arginine leader-binding protein dmsD (204 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%), Gaps = 1/20 (5%) Frame = -3 Query: 154 HLFPWSTRFLD-VFIEKAEH 172 H+F WS + + ++K+ H Sbjct: 3956 HVFSWSLSLMQFLMLQKSSH 3897 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 12/23 (52%) Frame = -2 Query: 133 LMAAWLAENGRQTECEELLAWHL 155 L+ +WL + T LLA H+ Sbjct: 2799 LIFSWLTQIFPLTALTVLLATHI 2731 Score = 15.4 bits (28), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 19 ALFYYA 24 ALF+YA Sbjct: 3333 ALFFYA 3350 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DNAA_ECOLI P03004 Chromosomal replication initiator protein dnaA (467 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 16/32 (50%) Frame = -3 Query: 239 FFANKERSQEEFFHTFNALLEGNQQIILTSDR 270 FF+N ++ + F T + + +TSD+ Sbjct: 3317 FFSNNKKPRNSGFDTTGPYSPLKESLGMTSDK 3222 Score = 18.5 bits (36), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -1 Query: 45 RFVLDWVRDKYLNNI 59 RFV WV+ YL+ + Sbjct: 6028 RFVRLWVQAIYLHFL 5984 Score = 17.7 bits (34), Expect = 5.5, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 2/24 (8%) Frame = +2 Query: 131 NVNVKHTFDNFVEGKS--NQLARA 152 +V K DNF GKS Q++R Sbjct: 3368 HVGTKINRDNFSTGKSLGTQISRG 3439 Score = 16.9 bits (32), Expect = 8.9, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 6/31 (19%) Frame = -1 Query: 39 ALYAPNRFVLDWVRDKYLN------NINGLL 63 +Y P LDW+R L ++NGLL Sbjct: 370 VVYKPT*RQLDWLR*IILYVVALNAHLNGLL 278 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DNAB_ECOLI P0ACB0 Replicative DNA helicase (3.6.1.-) (471 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 17/33 (51%) Frame = +2 Query: 18 DPQVAGLKVPPHSIEAEQSVLGGLMLDNERWDD 50 DP A + + ++A + LGG +D WDD Sbjct: 4607 DPIGACVGMRGARVQAVSNELGGERIDIVLWDD 4705 Score = 17.3 bits (33), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = +1 Query: 458 SRFDNYAGPQY 468 SR NY PQY Sbjct: 5302 SR*INYGSPQY 5334 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DNAC_ECOLI P0AEF0 DNA replication protein dnaC (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DNAJ_ECOLI P08622 Chaperone protein dnaJ (Heat shock protein J) (HSP40) (376 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.52, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = -2 Query: 283 PTLDGRVKLKVPGETQTGKLF 303 P GR+ K+P G++F Sbjct: 4446 PRASGRISYKIPLMRSPGRMF 4384 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 249 QVKQHPIFE 257 QV HP+FE Sbjct: 1936 QVLNHPLFE 1962 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = -3 Query: 174 QGFFAVQQTCPHCQ 187 GFF+ TC C Sbjct: 5747 AGFFSTCSTCFACS 5706 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 9/9 (100%) Frame = -3 Query: 351 PTGEHNSPR 359 P+GE++SP+ Sbjct: 2195 PSGENSSPK 2169 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DNAK_ECOLI P0A6Y8 Chaperone protein dnaK (Heat shock protein 70) (Heat shock 70 kDa protein) (HSP70) (638 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +1 Query: 238 NYLVEEFKKD 247 NYLV EF+ D Sbjct: 1669 NYLVLEFRND 1698 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DNAT_ECOLI P0A8J2 Primosomal protein 1 (Primosomal protein I) (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +2 Query: 131 EGKVFHHVQWQQKL 144 G + V+WQQK+ Sbjct: 5951 NGLLKKRVKWQQKM 5992 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DNLJ_ECOLI P15042 DNA ligase (6.5.1.2) (Polydeoxyribonucleotide synthase [NAD+]) (671 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.46, Method: Compositional matrix adjust. Identities = 38/149 (25%), Positives = 66/149 (44%), Gaps = 9/149 (6%) Frame = +1 Query: 42 LRELETKHPEL---ITPDSPTQRVGAAPLAAFSQIRHEVPMLS--LDNVFDEESFLAFNK 96 L EL K+ +L I ++ + G A A +Q++ ++ L +FD+ + + Sbjct: 1954 LFELFLKNDQLHDPIVSEAYCKAFGWASEAHLAQMKKLSYQVNDVLSKLFDDAGLILVDF 2133 Query: 97 RVQDRLKNNEKVTWCCELKLDGLAVSILYENGVLVSA-ATRGDGTTGEDITSNVRTIRAI 155 +++ L N K+T E DG L++ L R G G I + + + I Sbjct: 2134 KLEFGLFEN-KITLGDEFSPDGCR---LWDKKTLEKMDKDRFRGNLGGVIEAYEQVAKRI 2301 Query: 156 --PLKLHGENIPARLEVRGEVFLPQ-AGF 181 PL +N+ A ++ GE+ L Q AGF Sbjct: 2302 GVPLAPFSDNVSANKKI*GEIALAQTAGF 2388 Score = 17.7 bits (34), Expect = 7.6, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = +3 Query: 190 RTGGKVFANPR 200 R GG++ +NP+ Sbjct: 30 RNGGEISSNPQ 62 Score = 17.3 bits (33), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -1 Query: 404 FPTHC 408 FPTHC Sbjct: 2773 FPTHC 2759 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DOS_ECOLI P76129 Heme-regulated cyclic di-GMP, cyclic AMP phosphodiesterase, (3.1.4.-) (Direct oxygen sensor protein) (Ec DOS) (799 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 15/28 (53%) Frame = +2 Query: 256 QLEGNILAAMCSSPPFHEMGEIICRNIE 283 Q +GN LA + S + +++ NIE Sbjct: 989 QQQGNQLALVVKSLGLQQQEKMVTSNIE 1072 Score = 18.1 bits (35), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%), Gaps = 1/14 (7%) Frame = -2 Query: 575 IEALAR-WHDPLHG 587 ++ L R WHDP+ G Sbjct: 6810 LDGLDRLWHDPIIG 6769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPAL_ECOLI P66899 Putative diaminopropionate ammonia-lyase (Diaminopropionatase) (4.3.1.15) (Alpha,beta-diaminopropionate ammonia-lyase) (398 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPIA_ECOLI P0AEF4 Transcriptional regulatory protein dpiA (Destabilizer of plasmid inheritance) (226 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 12/26 (46%) Frame = +2 Query: 76 HYPGDVVFTTAASDMETVSEAVRCGV 101 + P D + A+ D + + CGV Sbjct: 5153 NKPADDLLNLASLDRDMAFKLAACGV 5230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPIB_ECOLI P77510 Sensor kinase dpiB (2.7.13.3) (Sensor kinase citA) (552 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = -1 Query: 103 RHSIRLYHPNPEKIGY 118 RHS+ P+P Y Sbjct: 4660 RHSLNTCSPHPNTCPY 4613 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPO1_ECOLI P00582 DNA polymerase I (POL I) (2.7.7.7) (928 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPO2_ECOLI P21189 DNA polymerase II (Pol II) (2.7.7.7) (783 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 5.2, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 14/30 (46%) Frame = -2 Query: 131 HNGTIVNARLKPHPDYRPPLKWVSIDIETT 160 +N T+ A P D+R + IDI + Sbjct: 3276 YNWTLFAAERIPRHDFR*MFFQIKIDISLS 3187 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPO3A_ECOLI P10443 DNA polymerase III subunit alpha (2.7.7.7) (1160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPO3B_ECOLI P0A988 DNA polymerase III subunit beta (2.7.7.7) (366 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.70, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +1 Query: 259 GCDLLKQAFARAAILSN 275 GCDLL + R A + N Sbjct: 13 GCDLLPETVVRLAQIPN 63 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +1 Query: 272 ILSNEKFRGVRLY 284 ++SN +FRG L+ Sbjct: 3271 VVSNPEFRGFLLF 3309 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPO3E_ECOLI P03007 DNA polymerase III subunit epsilon (2.7.7.7) (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.62, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = -2 Query: 48 FHVYLKPDRLVDPEAFGV 65 F+V + PD L DP F Sbjct: 6660 FNV-ISPDMLCDPSCFPC 6610 Score = 16.2 bits (30), Expect = 7.3, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +2 Query: 200 ATIQRIVRQASKLRV 214 T QRI R KLR+ Sbjct: 2327 TTYQRIKRFKVKLRL 2371 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPO3X_ECOLI P06710 DNA polymerase III subunit tau (2.7.7.7) (DNA polymerase III subunit gamma) (643 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.44, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 15/29 (51%) Frame = +2 Query: 263 RVMALINEAAARGIEWEALLVEMLGLLHR 291 R+ ++E + I W LL M+G HR Sbjct: 6707 RLHQCVHEVLRQQISWFWLLRPMMGSCHR 6793 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPO4_ECOLI Q47155 DNA polymerase IV (Pol IV) (2.7.7.7) (351 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPPA_ECOLI P23847 Periplasmic dipeptide transport protein (Dipeptide-binding protein) (DBP) (Precursor) (535 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 12/23 (52%) Frame = +2 Query: 159 DDNTVQFVLTRPEAPFLADLAMD 181 DDN QFVL +A + +D Sbjct: 4700 DDNPAQFVLNAMAPAEVASIVVD 4768 Score = 18.1 bits (35), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 10/15 (66%) Frame = -1 Query: 329 GAGVSAKNLIPPTMW 343 G + ++L+P T+W Sbjct: 5440 GDQLKLRSLLPATLW 5396 Score = 17.7 bits (34), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -1 Query: 336 NLIPPTMWGYNDDV 349 NL+P + GY ++ Sbjct: 6940 NLLPTLLAGYRAEI 6899 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPPB_ECOLI P0AEF8 Dipeptide transport system permease protein dppB (339 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +3 Query: 122 AVKRGSIFDHTA 133 + RGS DHTA Sbjct: 6603 SCGRGSRRDHTA 6638 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 60 KPMWQQ 65 +PMWQQ Sbjct: 212 RPMWQQ 229 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 12/20 (60%) Frame = -3 Query: 154 MLVSVHWNLTPVSGRVSDMV 173 M++ + NLT VSG S V Sbjct: 68 MILGI*ANLTTVSGNKSQPV 9 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPPC_ECOLI P0AEG1 Dipeptide transport system permease protein dppC (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = +2 Query: 267 WVVTFPGLAI 276 WV++FP +A+ Sbjct: 2171 WVMSFPPMAV 2200 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPPD_ECOLI P0AAG0 Dipeptide transport ATP-binding protein dppD (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 7 DKLSVHF 13 +KLSVHF Sbjct: 4859 EKLSVHF 4839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPPF_ECOLI P37313 Dipeptide transport ATP-binding protein dppF (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -2 Query: 128 INTSLSKEQRRE 139 I TSL+ QRR+ Sbjct: 4047 ITTSLTTFQRRK 4012 Score = 16.9 bits (32), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 268 LNPDDRR 274 L+PDDRR Sbjct: 905 LHPDDRR 885 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DPS_ECOLI P0ABT2 DNA protection during starvation protein (1.16.-.-) (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSBA_ECOLI P0AEG4 Thiol:disulfide interchange protein dsbA (Precursor) (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.64, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 11/13 (84%) Frame = +1 Query: 187 TSNMDVFVQQYAD 199 ++++D +QQ+AD Sbjct: 5422 STSVDRLIQQFAD 5460 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/31 (25%), Positives = 16/31 (51%) Frame = -1 Query: 53 YQFEEVLHISDNVKKKLPEGVKMTKYHVNFM 83 Y+F V +IS + + V ++ + NF+ Sbjct: 4171 YRFNLVFNISRDFRFGGNRRVLLSLFFTNFL 4079 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSBB_ECOLI P0A6M2 Disulfide bond formation protein B (Disulfide oxidoreductase) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSBC_ECOLI P0AEG6 Thiol:disulfide interchange protein dsbC (Precursor) (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 8/17 (47%), Gaps = 5/17 (29%) Frame = -2 Query: 116 ITCGYC-----HKLHEQ 127 + CGYC H H Q Sbjct: 3795 LLCGYCLVRTLHLFHLQ 3745 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSBD_ECOLI P36655 Thiol:disulfide interchange protein dsbD (1.8.1.8) (Protein-disulfide reductase) (Disulfide reductase) (C-type cytochrome biogenesis protein cycZ) (Inner membrane copper tolerance protein) (Precursor) (565 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSBE_ECOLI P0AA86 Thiol:disulfide interchange protein dsbE (Cytochrome c biogenesis protein ccmG) (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 49 RLESLDNPGQFYQ 61 RLE +D+P Y+ Sbjct: 1732 RLEYVDHPLLMYR 1694 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -1 Query: 64 VLTQGKPVLLNVWATWCPTC 83 +LT+ L +VW + P C Sbjct: 6178 LLTRRVYCLFSVW*FYFPGC 6119 Score = 16.5 bits (31), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +3 Query: 113 ISWLKELGNPY 123 I W ++L +PY Sbjct: 2649 I*WFRQLYDPY 2681 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSBG_ECOLI P77202 Thiol:disulfide interchange protein dsbG (Precursor) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 14/38 (36%), Positives = 19/38 (50%) Frame = +1 Query: 166 ILASKDPAKTWQQYEASGGKLKLNVPANVSTEQMKVLS 203 IL S D A T + GG+ ++V ANV+ M L Sbjct: 139 ILLSGDDA-TGFDFIQKGGQGIISVTANVAAGGMTELC 249 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +2 Query: 63 DGKHAISGYM 72 +G H+ISG + Sbjct: 6623 EGSHSISGLI 6652 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +1 Query: 30 QGITIIKTFDAPGGM 44 +G +IKT GGM Sbjct: 6334 KGSQVIKTMMKLGGM 6378 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSDC_ECOLI P46068 HTH-type transcriptional regulator dsdC (D-serine deaminase activator) (311 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.18, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 2/34 (5%) Frame = -2 Query: 279 CHQHYYITTL--PGRQWPKIEAFIIWLREQVKTT 310 C ++ ITT R + I F +W+ + KTT Sbjct: 4269 CSRNCSITTARSASRTFCTITCFAVWVVMRSKTT 4168 Score = 20.4 bits (41), Expect = 0.47, Method: Compositional matrix adjust. Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 4/33 (12%) Frame = -3 Query: 255 RKRLVQ----KRLASGELVAPFGDMTVKCHQHY 283 R+ LVQ KR LV P GD C +HY Sbjct: 1238 RRVLVQ*VWVKRYRHVPLV-PLGDRFCLCFEHY 1143 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 16/31 (51%) Frame = -1 Query: 46 VSHRINQLEEELGIQLFVRSHRKVELTHEGK 76 +SHR+N E +L F+ S +H GK Sbjct: 2272 LSHRLNCHESDL-YPSFLTSFYPTSDSHRGK 2183 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 16/34 (47%) Frame = +3 Query: 89 LNQEILDIKNQELSGTLTLYSRPSIAQCWLVPAL 122 L ++ I+ QE+S RPS+ W V L Sbjct: 3966 LKSGLISIEKQEIS-------RPSVVGKWSVKWL 4046 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSDX_ECOLI P08555 DsdX permease (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +1 Query: 95 RCRWLSV 101 RCRW +V Sbjct: 709 RCRWQTV 729 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DSRB_ECOLI P0AEG8 Protein dsrB (62 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.1, Method: Composition-based stats. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -1 Query: 44 IWFFNEAGHQDGIFV 58 I FFN H+ +FV Sbjct: 4810 ITFFNCYVHRFCVFV 4766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DTD_ECOLI P0A6M4 D-tyrosyl-tRNA(Tyr) deacylase (3.1.-.-) (145 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.00 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.00, Method: Compositional matrix adjust. Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 2/50 (4%) Frame = -3 Query: 5 IQRVTRASVTVEGEVTGEI--GAGLLVLLGVEKDDDEQKANRLCERVLGY 52 I + A+VTV +T + GLL +LC +VLG+ Sbjct: 6326 ILFASSATVTVSPMITSRLTTATGLL---------------KLCCKVLGF 6222 Score = 15.4 bits (28), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +1 Query: 64 LNVQQAGGSVLVV 76 LNV +GG V Sbjct: 5590 LNVPSSGGKSKSV 5628 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DUSA_ECOLI P32695 tRNA-dihydrouridine synthase A (1.-.-.-) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.81 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.81, Method: Compositional matrix adjust. Identities = 10/38 (26%), Positives = 17/38 (44%) Frame = +2 Query: 155 FINTVSGKGECEMFIIHARKAWLSGLSPKENREIPPLD 192 FI + EC ++ A + L L+ E+P +D Sbjct: 4946 FIEHLEIDEECATVLVEAEFSSLEELAYVPESELPEID 5059 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DUSB_ECOLI P0ABT5 tRNA-dihydrouridine synthase B (1.-.-.-) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.95 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.95, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +2 Query: 136 VTLKIRTGWAPE 147 +TLK +TGW P Sbjct: 6650 ITLKPKTGW*PS 6685 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%), Gaps = 2/14 (14%) Frame = -3 Query: 94 IDINMGCP--AKKV 105 ID+N CP +KKV Sbjct: 6719 IDVNAACPGVSKKV 6678 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DUSC_ECOLI P33371 tRNA-dihydrouridine synthase C (1.-.-.-) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DUT_ECOLI P06968 Deoxyuridine 5'-triphosphate nucleotidohydrolase (dUTPase) (3.6.1.23) (dUTP pyrophosphatase) (151 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +3 Query: 2 KKIDVKILDPRVGKEFPL 19 + I + RVG+ FP+ Sbjct: 6894 RTISARYPARRVGRRFPI 6947 Score = 17.3 bits (33), Expect = 1.9, Method: Compositional matrix adjust. Identities = 20/85 (23%), Positives = 33/85 (38%) Frame = -3 Query: 9 LDPRVGKEFPLPTYATSGSAGLDLRACLNDAVELAPGDTTLVPTGLAIHIADPSLAAMML 68 LDP +E P P A SA L C N ++P + + T +I P +L Sbjct: 2654 LDPNRVEEAPAPNEA-PISAPLP---CCNTISAISPIEISKKNTSSVTYIVVP-----IL 2502 Query: 69 PRSGLGHKHGIVLGNLVGLIDSDYQ 93 P K ++ ++ + D + Sbjct: 2501 PMGSPHKKCSLLCASISSIAKEDCK 2427 Score = 15.0 bits (27), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 93 QGQLMISVWNRGQD 106 Q Q + W RG+D Sbjct: 3036 QKQAISMNWYRGRD 2995 Score = 15.0 bits (27), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = -1 Query: 62 SLAAMMLPRSGLGHKH 77 SLA + + L H H Sbjct: 199 SLALLFV*NQNLSHHH 152 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DXR_ECOLI P45568 1-deoxy-D-xylulose 5-phosphate reductoisomerase (DXP reductoisomerase) (1.1.1.267) (1-deoxyxylulose-5-phosphate reductoisomerase) (2-C-methyl-D-erythritol 4-phosphate synthase) (398 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.69, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 18 LDVVRHNPEHF 28 L++ HN EHF Sbjct: 2449 LEIEAHNKEHF 2481 Score = 16.9 bits (32), Expect = 7.3, Method: Compositional matrix adjust. Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 2/42 (4%) Frame = +2 Query: 84 AACDMAALEDVDQVMAAIVGAAGL--LPTLAAIRAGKTILLA 123 AAC + LED+ A G + L + L +AGK I+ A Sbjct: 5216 AACGVCTLEDL-----AEQGVSDLADIEELDDEKAGKLIMAA 5326 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DXS_ECOLI P77488 1-deoxy-D-xylulose-5-phosphate synthase (2.2.1.7) (1-deoxyxylulose-5-phosphate synthase) (DXP synthase) (DXPS) (620 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 277 FLHIMTKKGRGYE 289 F+H+ KKG G + Sbjct: 6946 FVHVSAKKGTGID 6984 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= DYR_ECOLI P0ABQ4 Dihydrofolate reductase (1.5.1.3) (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 6/13 (46%) Frame = +2 Query: 74 WVKSVDEAIAACG 86 WV S ACG Sbjct: 2171 WVMSFPPMAVACG 2209 Score = 15.4 bits (28), Expect = 7.9, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = +2 Query: 146 QNSHSYC 152 +N H YC Sbjct: 3728 RNDHRYC 3748 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= E4PD_ECOLI P0A9B6 D-erythrose-4-phosphate dehydrogenase (E4PDH) (1.2.1.72) (339 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 13/50 (26%), Positives = 24/50 (48%) Frame = +2 Query: 57 FAWEVRQERDQLFVGDDAIRVLHERSLQSLPWRELGVDVVLDCTGVYGSR 106 F EV + ++L AIR R+ ++ + +D + C G+ G+R Sbjct: 4496 FRIEVPEIDEELIEIKAAIRDPASRAKIAVKTNDKRIDPIGACVGMRGAR 4645 Score = 16.2 bits (30), Expect = 9.6, Method: Compositional matrix adjust. Identities = 4/13 (30%), Positives = 9/13 (69%) Frame = +1 Query: 146 EHRIVSNASCTTN 158 HR+ ++A+C + Sbjct: 1237 RHRLATSAACVSK 1275 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EAEH_ECOLI P36943 Putative attaching and effacing protein homolog (Precursor) (295 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.91, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -2 Query: 54 RLSMGNTTVTADNNVE 69 RLS T V D+NV Sbjct: 879 RLSFCITVVICDHNVS 832 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 112 LGKYGTARVKLNVDKD 127 LGKY K++ DKD Sbjct: 481 LGKYNGYITKISNDKD 528 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EAMA_ECOLI P31125 Probable amino-acid metabolite efflux pump (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EAMB_ECOLI P38101 Cysteine/O-acetylserine efflux protein (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 154 TFGNVC 159 +FGNVC Sbjct: 1242 SFGNVC 1259 Score = 16.5 bits (31), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -3 Query: 8 AFWTYTLITAMTP 20 A W +++ MTP Sbjct: 6815 ACWMASIVCGMTP 6777 Score = 15.8 bits (29), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -2 Query: 165 HLFQRLF 171 HLF RLF Sbjct: 2232 HLF*RLF 2212 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EBGC_ECOLI P0AC73 Evolved beta-galactosidase subunit beta (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.98, Method: Compositional matrix adjust. Identities = 14/44 (31%), Positives = 17/44 (38%), Gaps = 5/44 (11%) Frame = +1 Query: 108 VEVHEGQIVICDI--HEAY---RFICNNAVKKVVLKVTIEDGYF 146 VE G + D H A+ R A VVL V +DG Sbjct: 6655 VETENGMVTFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVM 6786 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EBGR_ECOLI P06846 HTH-type transcriptional regulator ebgR (Ebg operon repressor) (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +2 Query: 299 LVYEKARDGRALPLLV 314 L + ARD ALP L+ Sbjct: 1175 LEVQAARDDSALPRLI 1222 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ECNA_ECOLI P0ADB4 Entericidin A (Precursor) (41 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ECNB_ECOLI P0ADB7 Entericidin B (Precursor) (48 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +3 Query: 12 VLVLSTVLTAC 22 VLV++ LT C Sbjct: 5142 VLVITNPLTTC 5174 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ECOT_ECOLI P23827 Ecotin (Precursor) (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.65, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -3 Query: 71 NLHRLGGKLENK 82 +LHRLG L N+ Sbjct: 956 HLHRLGSILSNR 921 Score = 15.8 bits (29), Expect = 6.4, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +2 Query: 134 PIVVYTP 140 P+V+Y P Sbjct: 11 PVVIYCP 31 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ECPD_ECOLI P33128 Chaperone protein ecpD (Precursor) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/7 (100%), Positives = 7/7 (100%) Frame = +2 Query: 214 MKVNGLN 220 MKVNGLN Sbjct: 5990 MKVNGLN 6010 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 14/26 (53%) Frame = -2 Query: 122 KPDAEKVANQSLLQLAFRTRIKLFYR 147 P +E VAN +L+ + + +YR Sbjct: 3081 HPASENVANSTLIIIQKQAISMNWYR 3004 Score = 17.3 bits (33), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 206 IAPFSDEV 213 +APFSD V Sbjct: 2311 LAPFSDNV 2334 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 173 ASLRVTNPTPY 183 + LRV +PT Y Sbjct: 3124 SDLRVMSPTSY 3092 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +1 Query: 159 PLALKW 164 P+A+KW Sbjct: 340 PIAVKW 357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EDD_ECOLI P0ADF6 Phosphogluconate dehydratase (4.2.1.12) (6-phosphogluconate dehydratase) (603 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EFEU_ECOLI P75901 Putative ferrous iron permease efeU (Putative Fe(2+) ion permease efeU) (276 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -2 Query: 248 VAVWFIYLI 256 ++VWFIY + Sbjct: 6876 ISVWFIYFV 6850 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EFG_ECOLI P0A6M8 Elongation factor G (EF-G) (704 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 37 1e-05 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 37.0 bits (84), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 24/67 (35%), Positives = 35/67 (52%) Frame = +1 Query: 84 INIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNK 143 + +DTPGH FT R + D V+V A GV PQ+ + A KVP + +NK Sbjct: 6676 VTFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAKVPVVVVINK 6855 Query: 144 MDRMGAN 150 +D+ A+ Sbjct: 6856 IDKPNAD 6876 Score = 20.0 bits (40), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 575 GIRLHFGSYH 584 GI H G+YH Sbjct: 6625 GITQHIGAYH 6654 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EFPL_ECOLI P0A6N8 Elongation factor P-like protein (190 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.18, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 20/35 (57%) Frame = +2 Query: 81 EYVFMDKEDYTPYTFTKDQIEEELLFMPEGGMPDM 115 E++ +D+E T + EEL ++PE +P++ Sbjct: 4952 EHLEIDEECATVLVEAEFSSLEELAYVPESELPEI 5056 Score = 16.2 bits (30), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 165 QVPEYLSPGEKIR 177 QVP L+ KIR Sbjct: 5545 QVPNKLTLQRKIR 5583 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EFP_ECOLI P0A6N4 Elongation factor P (EF-P) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.11, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 19/35 (54%) Frame = +1 Query: 133 LEIVDTDPGLKGDTAGTGGKPATLSTGAVVKVPLF 167 LE++ + ++ TAG+ K ++ V+ PLF Sbjct: 1855 LEMIPIECVIRNRTAGSLVKRLGITENQVLNHPLF 1959 Score = 16.5 bits (31), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = +2 Query: 98 KAIGDNAKWLLDQAECIVTLWN 119 ++ D +K LLD TLW+ Sbjct: 782 ESTADISKLLLDNNRQNDTLWS 847 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EFTS_ECOLI P0A6P1 Elongation factor Ts (EF-Ts) (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EFTU_ECOLI P0A6N1 Elongation factor Tu (EF-Tu) (P-43) (394 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 42 2e-07 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 42.0 bits (97), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 26/64 (40%), Positives = 32/64 (50%) Frame = +1 Query: 57 KARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQT 116 +A GIT + +T +D PGHA + GA D +LVVAA DG MPQT Sbjct: 6616 EAGGITQHIGAYHVETENGMVTFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQT 6795 Query: 117 REHI 120 E I Sbjct: 6796 IEAI 6807 Score = 17.7 bits (34), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 116 TREHILLG 123 TR+HILL Sbjct: 4381 TRQHILLS 4358 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ELAA_ECOLI P0AEH3 Protein elaA (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -1 Query: 116 AQAHLQNFY 124 AQ HL++FY Sbjct: 2368 AQFHLKSFY 2342 Score = 16.9 bits (32), Expect = 2.3, Method: Compositional matrix adjust. Identities = 13/49 (26%), Positives = 21/49 (42%) Frame = +2 Query: 55 KNDELVAYARILKSDDDLEPVVIGRVIVSEALRGEKVGQQLMSKTLETC 103 +ND LVA R + +D + G ++ S +G L K +C Sbjct: 1481 QNDALVAVLRAALNQNDAK*KESGDLL*S*VKNNHTIGAILRCKN*PSC 1627 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ELAB_ECOLI P0AEH5 Protein elaB (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -3 Query: 69 VYRADDYV 76 +YR DDY Sbjct: 839 MYRFDDYC 816 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ELAD_ECOLI Q47013 Protease elaD (3.4.22.-) (Deubiquitinase) (Deubiquitinating protease) (Deubiquitinating enzyme) (DUB) (403 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 14/35 (40%) Frame = +1 Query: 243 KKNNKLQIKCVIFNSLRALGYDKENSLKRVINSFN 277 KK NKL RA+G + + SFN Sbjct: 6148 KKGNKLSESKADREEARAVGRKSKRKPSTLQQSFN 6252 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ELBB_ECOLI P0ABU5 Enhancing lycopene biosynthesis protein 2 (Sigma cross-reacting protein 27A) (SCRP-27A) (217 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.81 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.81, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 10/17 (58%) Frame = +2 Query: 172 PCPVDDIVVDEDNKIVT 188 P V IVVDED K + Sbjct: 4739 PAEVASIVVDEDAKTMN 4789 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EMRA_ECOLI P27303 Multidrug resistance protein A (390 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.31, Method: Compositional matrix adjust. Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 10/53 (18%) Frame = +2 Query: 123 KQLQANIEVQKI----------ALAKAQSDYNRRVPLGNANLIGREELQHARD 165 K + +NIE+Q L K +S+ N N + IGR E+Q ARD Sbjct: 1049 KMVTSNIEIQHYNRAMLNKLIEGLDKIRSNSNN---AQNTDKIGRLEVQAARD 1198 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 14/26 (53%) Frame = -1 Query: 239 PTTPLMAVVPATNMWVDANFKETQIA 264 P+T M + P+T + + + + IA Sbjct: 3754 PSTVTMIISPSTALMIPCHLRRFCIA 3677 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EMRB_ECOLI P0AEJ0 Multidrug resistance protein B (512 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -1 Query: 157 LGGYISDNYHWGWIF 171 LG Y NY + +F Sbjct: 4195 LGSYAVKNYRFNLVF 4151 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EMRD_ECOLI P31442 Multidrug resistance protein D (394 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 10/24 (41%) Frame = -2 Query: 271 STLMWQSVICCLLAGLLMWIPDWF 294 S L WQ + +WI WF Sbjct: 6933 SPLFWQDTVLR*FCSKTLWISVWF 6862 Score = 17.3 bits (33), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -3 Query: 258 FGAWFAGRPNK 268 F WF+ PN+ Sbjct: 1946 FSTWFSVIPNR 1914 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EMRE_ECOLI P23895 Multidrug transporter emrE (Efflux-multidrug resistance protein emrE) (Methyl viologen resistance protein C) (Ethidium resistance protein) (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EMRK_ECOLI P52599 Multidrug resistance protein K (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EMRY_ECOLI P52600 Multidrug resistance protein Y (512 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.3, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = +1 Query: 175 FLINVPMGIIVLTLCLTLL 193 FL P+G I T+ +TLL Sbjct: 2479 FLCGDPIGRIGTTMYVTLL 2535 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EMTA_ECOLI P0C960 Endo-type membrane-bound lytic murein transglycosylase A (4.2.2.n2) (Peptidoglycan lytic endotransglycosylase) (Precursor) (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.44, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +2 Query: 10 IVLLAGCSSKHDY 22 ++LLA CS++ Y Sbjct: 545 LMLLAACSTEQRY 583 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= END1_ECOLI P25736 Endonuclease-1 (3.1.21.1) (Endonuclease I) (Endo I) (Precursor) (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= END3_ECOLI P0AB83 Endonuclease III (4.2.99.18) (DNA-(apurinic or apyrimidinic site) lyase) (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.20, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +2 Query: 194 CGSCIIEDLCE 204 CG C +EDL E Sbjct: 5222 CGVCTLEDLAE 5254 Score = 21.2 bits (43), Expect = 0.21, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = -2 Query: 90 IKTCRILLEQHN 101 IKTCRI+ Q N Sbjct: 174 IKTCRIITAQQN 139 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -1 Query: 82 YNSKAENIIKTCRILL 97 YN + I TCR+ L Sbjct: 1225 YNKSG*SAIVTCRLYL 1178 Score = 16.2 bits (30), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 39 SAQATDVSV 47 AQATD+ V Sbjct: 6730 GAQATDIVV 6756 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= END4_ECOLI P0A6C1 Endonuclease 4 (3.1.21.2) (Endonuclease IV) (Endodeoxyribonuclease IV) (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -1 Query: 224 FGSRVDRHH 232 F VDRHH Sbjct: 4909 FLKLVDRHH 4883 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -2 Query: 253 FDGIPLILETIN 264 +DG L+ T+N Sbjct: 3696 YDGFALLYVTLN 3661 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= END8_ECOLI P50465 Endonuclease VIII (DNA glycosylase/AP lyase Nei) (3.2.2.-) (4.2.99.18) (DNA-(apurinic or apyrimidinic site) lyase Nei) (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -3 Query: 238 CERCGSIIEKTTL 250 C RC S+ + L Sbjct: 2054 CARCASLAQPKAL 2016 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENGA_ECOLI P0A6P5 GTP-binding protein engA (Double era-like domain protein) (490 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.18, Method: Compositional matrix adjust. Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 10/83 (12%) Frame = +1 Query: 83 DVVLFMVDARAGLMPADEAIAKHLRSREKPTFLVANKTD--GLDPDQAVVDFYSLGL--- 137 D+V+ +V A G+MP +H ++ + P +V NK D DP++ + G+ Sbjct: 6745 DIVVLVVAADDGVMPQTIEAIQHAKAAKVPVVVVINKIDKPNADPERLRTELSQHGILPE 6924 Query: 138 --GEIYP---IAASHGRGVLSLL 155 G P ++A G G+ LL Sbjct: 6925 EWGGDSPFVHVSAKKGTGIDDLL 6993 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = +1 Query: 362 GNLFESVREAYDSSTRRVGTSM 383 GNL V EAY+ +R+G + Sbjct: 2251 GNL-GGVIEAYEQVAKRIGVPL 2313 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 10/13 (76%) Frame = +1 Query: 321 NKWDGLSQEVKEQ 333 ++W+ LSQ K++ Sbjct: 2761 SEWENLSQPAKDE 2799 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 10/20 (50%) Frame = -1 Query: 131 DFYSLGLGEIYPIAASHGRG 150 D Y L YP + SH RG Sbjct: 2242 DLYPSFLTSFYPTSDSH-RG 2186 Score = 16.9 bits (32), Expect = 8.6, Method: Compositional matrix adjust. Identities = 16/60 (26%), Positives = 27/60 (45%) Frame = +1 Query: 234 PGTTRDSIYIPMERDGREYVLIDTAGVRKRGKITDAVEKFSVIKTLQAIEDANVVMLVID 293 P T + S P+ R+ ++ +T V + AV+ VIKT+ + + VID Sbjct: 6226 PSTLQQSFNKPVAVVNRDVIIGETVTVAELANKM-AVKGSQVIKTMMKLGGMATINQVID 6402 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENGB_ECOLI P0A6P7 Probable GTP-binding protein engB (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 11/28 (39%) Frame = -1 Query: 3 NLNYQQTHFVMSAPDIRHLPSDTGIEVA 30 N HF H P+ G+E++ Sbjct: 4063 NFTCWHNHFT------DHFPTTEGLEIS 3998 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENGD_ECOLI P0ABU2 GTP-dependent nucleic acid-binding protein engD (363 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 16/24 (66%) Frame = +2 Query: 92 TNIRETEAIGHVVRCFENDNIIHV 115 ++++ T++ GH + +ND ++ V Sbjct: 1433 SSVQFTDSKGHTLNQQQNDALVAV 1504 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 8/9 (88%), Positives = 8/9 (88%) Frame = +2 Query: 242 ADIAELDDE 250 ADI ELDDE Sbjct: 5273 ADIEELDDE 5299 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENO_ECOLI P0A6P9 Enolase (4.2.1.11) (2-phosphoglycerate dehydratase) (2-phospho-D-glycerate hydro-lyase) (432 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENTA_ECOLI P15047 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase (1.3.1.28) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENTB_ECOLI P0ADI4 Isochorismatase (3.3.2.1) (Isochorismate lyase) (2,3 dihydro-2,3 dihydroxybenzoate synthase) (Enterobactin synthetase component B) (Enterochelin synthase B) (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +1 Query: 270 NPTIDAW 276 NP I AW Sbjct: 658 NPAITAW 678 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENTC_ECOLI P0AEJ2 Isochorismate synthase entC (5.4.4.2) (Isochorismate mutase) (391 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.9, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +2 Query: 294 LACLLHPTPALSGFPHQA 311 LACL +P + FP A Sbjct: 2144 LACLKIKSPWVMSFPPMA 2197 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 8/16 (50%) Frame = -1 Query: 67 QGIKNPVMVGAIPFDP 82 Q KNP G I DP Sbjct: 3310 QITKNPETRGLIQLDP 3263 Score = 16.9 bits (32), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -1 Query: 51 SPFQQKLAALFAD 63 PF Q+ ALF D Sbjct: 6439 DPFLQQPVALFPD 6401 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENTD_ECOLI P19925 4'-phosphopantetheinyl transferase entD (2.7.8.-) (Enterobactin synthetase component D) (Enterochelin synthase D) (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = +3 Query: 15 GHTLHFVEFDPA 26 GH L VEF P Sbjct: 3420 GHKLVGVEFIPG 3455 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENTE_ECOLI P10378 Enterobactin synthetase component E (Enterochelin synthase E) (2,3-dihydroxybenzoate-AMP ligase) (2.7.7.58) (Dihydroxybenzoic acid-activating enzyme) (S-dihydroxybenzoyltransferase) (2.3.1.-) (536 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENTF_ECOLI P11454 Enterobactin synthetase component F (2.7.7.-) (Enterochelin synthase F) (Serine-activating enzyme) (Seryl-AMP ligase) (1293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.71, Method: Compositional matrix adjust. Identities = 26/98 (26%), Positives = 43/98 (43%), Gaps = 4/98 (4%) Frame = +2 Query: 810 AQGYLGRPDLTASRFIADPFAPGER----MYRTGDVARWLDNGAVEYLGRSDDQLKIRGQ 865 A+G +G+ D+ I PG+R +Y AR G ++ RS ++ I Sbjct: 4343 AEGIIGQEDMLPRENIR----PGDRIRGILYEIRPEAR----GPQLFISRSRPEMLIELF 4498 Query: 866 RIELGEIDRVMQALPDVEQAVTHACVINQAAATGGDAR 903 RIE+ EID + L +++ A+ + A D R Sbjct: 4499 RIEVPEID---EELIEIKAAIRDPASRAKIAVKTNDKR 4603 Score = 21.9 bits (45), Expect = 0.88, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 19/36 (52%) Frame = -3 Query: 1091 QWSIIGIQSPRPNGPMQTAANLDEVCEAHLATLLEQ 1126 QW++ G +P ++ A VC+ HLA +L Q Sbjct: 791 QWTLSG--NPLIVPRVELVAECLTVCQRHLAVILAQ 690 Score = 19.2 bits (38), Expect = 4.5, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 14/25 (56%) Frame = -3 Query: 43 LLARAVVAGLAQADTLRMRFTEDNG 67 ++ V++ L QAD L + DNG Sbjct: 1043 VVVNPVISPLKQADFLAVAH*SDNG 969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENTS_ECOLI P24077 Enterobactin exporter entS (Protein p43) (416 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 16/31 (51%) Frame = +1 Query: 142 ENLMQAGAITMLTVRLGSVISPMIGGLLLAT 172 NL Q + + + ++ SP+I +LAT Sbjct: 3439 SNLFQGANPHCVFISITAMASPLICVQMLAT 3531 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENVR_ECOLI P0ACT2 Probable acrEF/envCD operon repressor (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.26, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 10/17 (58%) Frame = -1 Query: 65 QQPSLRELIQEHLTAGL 81 QQP R L+ EHL L Sbjct: 6766 QQPKPRYLLPEHLVHAL 6716 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 29/153 (18%), Positives = 62/153 (40%), Gaps = 39/153 (25%) Frame = +3 Query: 55 KTQLFNEMWLQQPSLRELIQEHLTAGLEHDPFQQLREKLIVGLQYIAKIPRQQALLKILY 114 K F + + +L + + E ++A P + L KL VG+++I P +Q+ L+I Sbjct: 3330 KALFFYALGVSLSTLEQKLTEIISA-----PVKALGHKL-VGVEFI---PGRQSTLRIYI 3482 Query: 115 HKCE---------------------------FNDEMLAEGVIREKMGFNPQ--------- 138 C+ +N E+ + G+ E++ F + Sbjct: 3483 DNCDGVTVDMCADVSYQVSAVLDVEEPITCPYNLEVSSPGL--ERLLFTAEDYTDYLGER 3656 Query: 139 ---TLREVLQACQQQGCVANNLDLDVVMIIIDG 168 TLR +Q ++ + +D +++++ +DG Sbjct: 3657 INLTLRIAMQNRRKWQGIIKAVDGEMIIVTVDG 3755 Score = 15.8 bits (29), Expect = 7.5, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 4/36 (11%) Frame = +1 Query: 68 SLRELIQEHLTAGLEHDP----FQQLREKLIVGLQY 99 S+ LIQ+ AGL+ QQ +E L+ L++ Sbjct: 5428 SVDRLIQQFADAGLKKSETSSVTQQEKEILLAHLKH 5535 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENVY_ECOLI P10805 Porin thermoregulatory protein envY (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = -1 Query: 60 RNIINDYLLFLNKNLTCVKP 79 RNI++ L + + L C++P Sbjct: 694 RNIVSSML*WQDYPL*CIEP 635 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ENVZ_ECOLI P0AEJ4 Osmolarity sensor protein envZ (2.7.13.3) (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +3 Query: 315 YEREIETALYP 325 Y+R + ALYP Sbjct: 1182 YKRHVTIALYP 1214 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EPTA_ECOLI P30845 Phosphoethanolamine transferase eptA (2.7.-.-) (Polymyxin resistance protein pmrC) (547 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.32, Method: Compositional matrix adjust. Identities = 20/66 (30%), Positives = 28/66 (42%) Frame = +2 Query: 297 HYKEELAQHQEGVLDIIQRAGINVLWNDNDGGCKGACDRVPHQNVTALNLPDQCINGECY 356 EEL + + + D RA I V ND GAC + V A++ + GE Sbjct: 4514 EIDEELIEIKAAIRDPASRAKIAVKTNDKRIDPIGACVGMRGARVQAVS---NELGGERI 4684 Query: 357 DEVLFH 362 D VL+ Sbjct: 4685 DIVLWD 4702 Score = 18.5 bits (36), Expect = 3.4, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 4/35 (11%) Frame = -2 Query: 427 YVDYIVDKAINLLKEHQDKFTTS----LVYLSDHG 457 + +YI++ L Q +FT+ V L+D+G Sbjct: 2097 FTEYIINLITQLFHLRQMRFTSPAKGFTVSLTDNG 1993 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EPTB_ECOLI P37661 Phosphoethanolamine transferase eptB (2.7.-.-) (563 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 3/33 (9%) Frame = +1 Query: 6 SITQQKLSFLLAIYI---GLFMNGAVFYRRFGS 35 S+TQQ+ LLA G N R+ S Sbjct: 5488 SVTQQEKEILLAHLKHEPGQVPNKLTLQRKIRS 5586 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ERA_ECOLI P06616 GTP-binding protein era (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +1 Query: 130 QEKADLLPHLQFLASQM 146 QEK LL HL+ Q+ Sbjct: 5500 QEKEILLAHLKHEPGQV 5550 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ERFK_ECOLI P39176 Protein erfK/srfK (Precursor) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ERPA_ECOLI P0ACC3 Iron-sulfur cluster insertion protein erpA (114 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +3 Query: 41 GCSGFQYGFTFDDQ 54 GC G +G DD+ Sbjct: 6759 GCCGR*WGHATDDR 6800 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ESSD_ECOLI P0A9R2 Lysis protein S homolog from lambdoid prophage DLP12 (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ESSQ_ECOLI P77237 Lysis protein S homolog from lambdoid prophage Qin (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ETK_ECOLI P38134 Tyrosine-protein kinase etk (2.7.10.-) (726 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +1 Query: 182 KDGVALTIADIKAKP 196 K+ A IAD K+KP Sbjct: 5782 KEANAKKIADTKSKP 5826 Score = 17.7 bits (34), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -1 Query: 486 NLFSNQQRHR 495 N+FSNQ R++ Sbjct: 3223 NVFSNQNRYQ 3194 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ETP_ECOLI P0ACZ2 Low molecular weight protein-tyrosine-phosphatase etp (3.1.3.48) (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 7/17 (41%) Frame = -3 Query: 66 GHAGRKLTAEMARNYDL 82 GH L A +NY Sbjct: 5102 GHDHAALEASFCQNYQF 5052 Score = 15.0 bits (27), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +2 Query: 6 FNSILVVCT 14 NSI VVC Sbjct: 2408 LNSIEVVCN 2434 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTA_ECOLI P76551 Ethanolamine utilization protein eutA (467 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -3 Query: 276 PFCFADIG 283 P CFADI Sbjct: 3800 PVCFADIA 3777 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = +3 Query: 29 NRAAVSQVPRYEFIKREISWQ 49 N +S P+Y +KR W+ Sbjct: 33 NGGEISSNPQYHRVKRS-HWK 92 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTB_ECOLI P0AEJ6 Ethanolamine ammonia-lyase heavy chain (4.3.1.7) (Ethanolamine ammonia-lyase large subunit) (453 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +1 Query: 266 DEARAVGAEFNR 277 +EARAVG + R Sbjct: 6187 EEARAVGRKSKR 6222 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 17/77 (22%), Positives = 32/77 (41%), Gaps = 2/77 (2%) Frame = +1 Query: 37 AAASSQERVAAKQVLSEMTVADIRNNPVIAYEDDCVTRLIQDDV--NETAYNQIKNWSIS 94 A A Q + + + + +AD ++ P++ E +T Q D E ++K Sbjct: 5746 AKAEEQAKSESAKEANAKKIADTKSKPIV--EKKKLTTQQQSDKTRREAEAAELKRSVER 5919 Query: 95 ELREYVLSDETSVDDIA 111 E+R + D V + A Sbjct: 5920 EVRRKIEEDAKRVAEEA 5970 Score = 17.7 bits (34), Expect = 5.5, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 7/27 (25%) Frame = -2 Query: 347 EDHFMGKLSGISMGC-------DCCYT 366 +D+FM + C DCC+T Sbjct: 6453 QDNFMTHFFSNQLRCFLINNLVDCCHT 6373 Score = 16.9 bits (32), Expect = 7.6, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 17/32 (53%) Frame = -2 Query: 122 VAAVAKICSNADLIYGAKKMPVIKKANTTIGI 153 + AVA SNA I+ + ++ A+TT I Sbjct: 3945 LVAVANAISNASKIFSRGRDFSLETASTTARI 3850 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTC_ECOLI P19636 Ethanolamine ammonia-lyase light chain (4.3.1.7) (Ethanolamine ammonia-lyase small subunit) (295 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -3 Query: 19 QAAPAPSEA 27 + APAP+EA Sbjct: 2636 EEAPAPNEA 2610 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTD_ECOLI P77218 Ethanolamine utilization protein eutD (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 11/12 (91%) Frame = -1 Query: 17 VVFPDALDQRVL 28 V+F DALDQR++ Sbjct: 6898 VLF*DALDQRLV 6863 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTE_ECOLI P77445 Ethanolamine utilization protein eutE (467 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTG_ECOLI P76553 Ethanolamine utilization protein eutG (1.1.-.-) (395 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.021 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.4 bits (54), Expect = 0.021, Method: Compositional matrix adjust. Identities = 13/37 (35%), Positives = 19/37 (51%) Frame = +2 Query: 244 SLPKAVGYGHDLAARESMLLASCMAGMAFSSAGLGLC 280 +L K +G + A + + LAS MAF A G+C Sbjct: 5123 ALKKEESFGDNKPADDLLNLASLDRDMAFKLAACGVC 5233 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTH_ECOLI P76552 Ethanolamine utilization protein eutH (Putative ethanolamine transporter) (408 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTJ_ECOLI P77277 Ethanolamine utilization protein eutJ (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTK_ECOLI P76540 Ethanolamine utilization protein eutK (Precursor) (166 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = -1 Query: 133 HFGWP 137 H GWP Sbjct: 6814 HVGWP 6800 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTL_ECOLI P76541 Ethanolamine utilization protein eutL (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.033 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.033, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 19/34 (55%) Frame = +1 Query: 98 AGLDAMIAHIENGAAFQWANDAQDTAFLAHVVSR 131 AGL + + NG + +ND + F+A VVSR Sbjct: 460 AGLLS*LLGKYNGYITKISNDKDNKRFVADVVSR 561 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTM_ECOLI P0ABF4 Ethanolamine utilization protein eutM (Precursor) (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.20, Method: Composition-based stats. Identities = 13/24 (54%), Positives = 14/24 (58%) Frame = +3 Query: 15 LIEASDAMVKAARVKLVGVKQIGG 38 L E A VKA KLVGV+ I G Sbjct: 3384 LTEIISAPVKALGHKLVGVEFIPG 3455 Score = 15.4 bits (28), Expect = 4.0, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 8 ETRGLVAL 15 ETRGL+ L Sbjct: 3292 ETRGLIQL 3269 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTN_ECOLI P0AEJ8 Ethanolamine utilization protein eutN (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 7.5, Method: Composition-based stats. Identities = 3/12 (25%), Positives = 6/12 (50%) Frame = -2 Query: 45 DNIGAGTGEWVL 56 DN+ W++ Sbjct: 6285 DNVAVDYSNWLI 6250 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTP_ECOLI P76556 Ethanolamine utilization protein eutP (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTQ_ECOLI P76555 Ethanolamine utilization protein eutQ (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 212 EFGTTSSVKF 221 +FG SSV+F Sbjct: 1418 DFGNRSSVQF 1447 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTR_ECOLI P36547 HTH-type transcriptional regulator eutR (Ethanolamine operon regulatory protein) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.40, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 12/21 (57%), Gaps = 2/21 (9%) Frame = +1 Query: 9 LHHLYHEP--LPENLKLTPKV 27 L HL HEP +P L L K+ Sbjct: 5518 LAHLKHEPGQVPNKLTLQRKI 5580 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = +2 Query: 326 FATDYQQLFSEKPSLTLHQ 344 F T YQ++ K L LH+ Sbjct: 2321 FLTTYQRIKRFKVKLRLHR 2377 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTS_ECOLI P63746 Ethanolamine utilization protein eutS (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.076 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.076, Method: Composition-based stats. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = +3 Query: 9 EFVPGKQVTL 18 EF+PG+Q TL Sbjct: 3441 EFIPGRQSTL 3470 Score = 20.8 bits (42), Expect = 0.13, Method: Composition-based stats. Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 23/60 (38%) Frame = +1 Query: 4 ERIIQEFVPG--------------KQVTLAHLIAHPGE-----ELAKKI----GVPDAGA 40 +R+IQ+F K++ LAHL PG+ L +KI VP +G Sbjct: 5434 DRLIQQFADAGLKKSETSSVTQQEKEILLAHLKHEPGQVPNKLTLQRKIRSTLNVPSSGG 5613 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EUTT_ECOLI P65643 Ethanolamine utilization cobalamin adenosyltransferase (2.5.1.17) (267 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -1 Query: 176 HQPLRYLDH 184 H PL Y DH Sbjct: 6514 HPPLPYRDH 6488 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EVGA_ECOLI P0ACZ4 Positive transcription regulator evgA (204 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.4, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 14/21 (66%) Frame = +1 Query: 157 DGKDNNDIAEKMFISNKTVST 177 +GK IAE++ +++ V+T Sbjct: 5992 EGKWPEPIAEQIELTDYHVTT 6054 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EVGS_ECOLI P30855 Sensor protein evgS (2.7.13.3) (Precursor) (1197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 10/10 (100%) Frame = +2 Query: 773 KIESGNYQLQ 782 K++SG+YQLQ Sbjct: 1382 KLKSGSYQLQ 1411 Score = 19.6 bits (39), Expect = 3.2, Method: Compositional matrix adjust. Identities = 12/49 (24%), Positives = 21/49 (42%) Frame = -3 Query: 1036 LTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQVAHIAPQYR 1084 L A + R+ CG+ +++ L+ L++ H V P YR Sbjct: 5375 LPATVITHYRQTSRYCGLP*LIYRLFHHLALQYRLNR*HPVRQDLPAYR 5229 Score = 18.9 bits (37), Expect = 5.5, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = +2 Query: 1132 FHQCIHRI 1139 HQC+H + Sbjct: 6710 LHQCVHEV 6733 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EX1_ECOLI P04995 Exodeoxyribonuclease I (Exonuclease I) (3.1.11.1) (DNA deoxyribophosphodiesterase) (dRPase) (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 12/18 (66%) Frame = -3 Query: 265 AGDISPLLELDSDTLRER 282 A ISP + L +DTL E+ Sbjct: 2372 ASAISP*IFLFADTLSEK 2319 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 16/26 (61%) Frame = +1 Query: 450 LVQQYADDKEKVALLKALWQYAEEIV 475 L+QQ+AD K + ++ Q +EI+ Sbjct: 5440 LIQQFADAGLKKSETSSVTQQEKEIL 5517 Score = 17.7 bits (34), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 281 ERLYTAKTDLGDN 293 ERL K +GDN Sbjct: 97 ERLSMIKPSVGDN 135 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EX3_ECOLI P09030 Exodeoxyribonuclease III (Exonuclease III) (EXO III) (3.1.11.2) (AP endonuclease VI) (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = +3 Query: 158 DLDIGIGEENRKRW 171 +L + I +NR++W Sbjct: 3660 NLTLRIAMQNRRKW 3701 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -1 Query: 171 WLRTGKCSFLPE 182 WL CSFL + Sbjct: 5398 WLHLSCCSFLLQ 5363 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EX5A_ECOLI P04993 Exodeoxyribonuclease V alpha chain (3.1.11.5) (Exodeoxyribonuclease V 67 kDa polypeptide) (608 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.85, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 13/21 (61%) Frame = -2 Query: 135 ALLAQTLDKLFPVSDEINWQK 155 ALL TL+ FP + + N Q+ Sbjct: 3684 ALLYVTLN*FFPPNSQYNLQR 3622 Score = 20.4 bits (41), Expect = 1.2, Method: Compositional matrix adjust. Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 1/80 (1%) Frame = +3 Query: 395 KRLLQSGEDYIAMLEEALAGYGRYLDLLQARAEPDLIIQAFNEYQLLCALREGPFGVAGL 454 +RLL + EDY L E + R +Q R + II+A + G + + Sbjct: 3606 ERLLFTAEDYTDYLGERINLTLRI--AMQNRRKWQGIIKAVD----------GEMIIVTV 3749 Query: 455 NERIEQF-MQQKRKIHRHPH 473 + + E F + RK +R PH Sbjct: 3750 DGKDEVFALSNIRKANRAPH 3809 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EX5B_ECOLI P08394 Exodeoxyribonuclease V beta chain (3.1.11.5) (Exodeoxyribonuclease V 135 kDa polypeptide) (1180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EX5C_ECOLI P07648 Exodeoxyribonuclease V gamma chain (3.1.11.5) (Exodeoxyribonuclease V 125 kDa polypeptide) (1122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 2.5, Method: Compositional matrix adjust. Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 2/71 (2%) Frame = +1 Query: 1053 QNDAMLDDDSTLQKARTKFLQAYEGNMMVRGEGDDIWYQRLWR--QLTPETMEAIVEQSQ 1110 +NDA ++ D + +K + +GN + + D + + R + P T++ Q Sbjct: 6082 ENDAKVEGDRRSRSRGSKTTKQKKGNKLSESKADREEARAVGRKSKRKPSTLQ------Q 6243 Query: 1111 RFLLPLFRFNQ 1121 F P+ N+ Sbjct: 6244 SFNKPVAVVNR 6276 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EX7L_ECOLI P04994 Exodeoxyribonuclease 7 large subunit (3.1.11.6) (Exodeoxyribonuclease VII large subunit) (Exonuclease VII large subunit) (456 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 9/20 (45%) Frame = -1 Query: 31 WISGEISNFTQPASGHWYFT 50 W++ NF Q WYF Sbjct: 4561 WVTNCRLNFDQLFVNFWYFN 4502 Score = 18.1 bits (35), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 229 RIPVVSAVGH 238 R PVV+ +GH Sbjct: 6526 RAPVVTIMGH 6555 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EX7S_ECOLI P0A8G9 Exodeoxyribonuclease 7 small subunit (3.1.11.6) (Exodeoxyribonuclease VII small subunit) (Exonuclease VII small subunit) (80 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 63 LLSDNE 68 LLSDNE Sbjct: 1822 LLSDNE 1839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EXBB_ECOLI P0ABU7 Biopolymer transport protein exbB (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EXBD_ECOLI P0ABV2 Biopolymer transport protein exbD (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EXOX_ECOLI P0AEK0 Exodeoxyribonuclease 10 (3.1.11.-) (Exodeoxyribonuclease X) (Exonuclease X) (Exo X) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.037 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.037, Method: Compositional matrix adjust. Identities = 11/23 (47%), Positives = 12/23 (52%) Frame = +1 Query: 179 YRGKAVSDVAERDPGYLRWLFNN 201 YRGKA + DP YL F N Sbjct: 1627 YRGKAKTVYTTEDPNYLVLEFRN 1695 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 10/45 (22%), Positives = 18/45 (40%) Frame = -1 Query: 71 YYGSEWYVAHNASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNM 115 +YG + + H+ RRV C + +PG Y ++ Sbjct: 6214 FYGQQPALLHDLLLTRRV--------YCLFSVW*FYFPGCDYGDL 6104 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EXUR_ECOLI P0ACL2 Exu regulon transcriptional regulator (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= EXUT_ECOLI P0AA78 Hexuronate transporter (472 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = +3 Query: 239 RDYIINGQ 246 RDY NGQ Sbjct: 195 RDYFSNGQ 218 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 12/23 (52%) Frame = +2 Query: 309 AWMPMLFADLGCILGGYLPPLFQ 331 +W+ ++ L C++ P L Q Sbjct: 6545 SWVMLIMVRLHCLIAFVRPKLRQ 6613 Score = 16.9 bits (32), Expect = 7.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 214 SFIWAMAWLIF 224 FIW + W +F Sbjct: 5562 KFIWHLTWFMF 5530 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= F16PA_ECOLI P0A993 Fructose-1,6-bisphosphatase class 1 (FBPase class 1) (3.1.3.11) (D-fructose-1,6-bisphosphate 1-phosphohydrolase class 1) (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +3 Query: 169 YTTGCGVHAF 178 + GCG H F Sbjct: 4620 HVLGCGEHVF 4649 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABA_ECOLI P0A6Q3 3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase (4.2.1.60) (Beta-hydroxydecanoyl thioester dehydrase) (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.52, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -1 Query: 58 ELDINPDLWFFGCHFIG 74 +DINPD F F+G Sbjct: 3991 SIDINPDFNFLFMFFLG 3941 Score = 18.9 bits (37), Expect = 0.76, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -2 Query: 64 DLWFFGCHFI 73 DL F CHFI Sbjct: 6348 DLRAFNCHFI 6319 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 10/23 (43%) Frame = -2 Query: 6 ESYTKEDLLASGRGELFGAKGPQ 28 S K + SGR L GP+ Sbjct: 4509 TSMRKSSISISGRERLINNWGPR 4441 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABB_ECOLI P0A953 3-oxoacyl-[acyl-carrier-protein] synthase 1 (2.3.1.41) (3-oxoacyl-[acyl-carrier-protein] synthase I) (Beta-ketoacyl-ACP synthase I) (KAS I) (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 13/28 (46%), Positives = 14/28 (50%), Gaps = 6/28 (21%) Frame = +1 Query: 177 IQLGKQDI------VFAGGGEELCWEMA 198 IQ G Q I V AGG ELC +A Sbjct: 178 IQKGGQGIISVTANVAAGGMTELCQRVA 261 Score = 16.5 bits (31), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 11/24 (45%) Frame = -3 Query: 126 LKAVGPYVVTKAMASGVSACLATP 149 L A+G + ++ SG+ P Sbjct: 353 LTAIGLASINNSLCSGIKRSFKRP 282 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABD_ECOLI P0AAI9 Malonyl CoA-acyl carrier protein transacylase (MCT) (2.3.1.39) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABF_ECOLI P0AAI5 3-oxoacyl-[acyl-carrier-protein] synthase 2 (2.3.1.179) (3-oxoacyl-[acyl-carrier-protein] synthase II) (Beta-ketoacyl-ACP synthase II) (KAS II) (413 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABG_ECOLI P0AEK2 3-oxoacyl-[acyl-carrier-protein] reductase (1.1.1.100) (3-ketoacyl-acyl carrier protein reductase) (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.8, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = -3 Query: 50 GANGKGLMLNVTDPASI 66 GANG + L ASI Sbjct: 2318 GANGTPIRLATCS*ASI 2268 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABH_ECOLI P0A6R0 3-oxoacyl-[acyl-carrier-protein] synthase 3 (2.3.1.180) (3-oxoacyl-[acyl-carrier-protein] synthase III) (Beta-ketoacyl-ACP synthase III) (KAS III) (EcFabH) (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 16/36 (44%) Frame = -1 Query: 205 LTMAGNEVFKVAVTELAHIVDETLAANNLDRSQLDW 240 LT+A N + ++ T V N DRS L W Sbjct: 4840 LTIAPNRLCRI--TFFNCYVHRFCVFVNNDRSYLSW 4739 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -2 Query: 243 PHQANLRIIS 252 PH ANL IS Sbjct: 5226 PHAANLNAIS 5197 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABI_ECOLI P0AEK4 Enoyl-[acyl-carrier-protein] reductase [NADH] (1.3.1.9) (NADH-dependent enoyl-ACP reductase) (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABR_ECOLI P0ACU5 HTH-type transcriptional repressor fabR (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.031 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.031, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 17/27 (62%) Frame = +3 Query: 11 TRRSLVEAAFSQLSAERSFASLSLREV 37 TRRSLV+ +Q E+ F++ RE+ Sbjct: 3111 TRRSLVQIRLTQPLLEKFFSNTIFREI 3191 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FABZ_ECOLI P0A6Q6 (3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase ((3R)-hydroxymyristoyl ACP dehydrase) (4.2.1.-) (17 kDa actomyosin component) (151 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.79 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.79, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = +1 Query: 103 RPVVPGDQMIMEVTFEKTRR 122 +P+V ++ + +KTRR Sbjct: 5821 KPIVEKKKLTTQQQSDKTRR 5880 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADA_ECOLI P21151 3-ketoacyl-CoA thiolase (2.3.1.16) (Fatty acid oxidation complex subunit beta) (Beta-ketothiolase) (Acetyl-CoA acyltransferase) (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = -3 Query: 308 NEAFAAQILPCIKDLGLIEQID 329 NEA + LPC + I I+ Sbjct: 2618 NEAPISAPLPCCNTISAISPIE 2553 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADB_ECOLI P21177 Fatty acid oxidation complex subunit alpha (Enoyl-CoA hydratase/Delta(3)-cis-Delta(2)-trans-enoyl-CoA isomerase/3-hydroxybutyryl-CoA epimerase) (4.2.1.17) (5.3.3.8) (5.1.2.3) (3-hydroxyacyl-CoA dehydrogenase) (1.1.1.35) (729 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +1 Query: 90 FANSVFNRLEDLPVPT 105 F + + NRLE +PT Sbjct: 1762 FNHFIMNRLEAAGIPT 1809 Score = 18.1 bits (35), Expect = 6.6, Method: Compositional matrix adjust. Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 3/47 (6%) Frame = +2 Query: 257 TIEAAARFGREEALN---LENKSFVPLAHTNEARALVGIFLNDQYVK 300 T+EAA +EEA + +S +P ++ +++V + Q K Sbjct: 4064 TLEAAQEISKEEAQQNTPISTESEIPTYIEDQIKSVVFDRITTQTAK 4204 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADE_ECOLI Q47146 Acyl-coenzyme A dehydrogenase (ACDH) (1.3.99.-) (814 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.65, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 545 HVGSNKVRSFW 555 H+GS K R FW Sbjct: 5116 HIGSKKRRKFW 5148 Score = 17.7 bits (34), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 12/16 (75%) Frame = +1 Query: 597 LGGSLKRRERISARLG 612 LGG ++ E+++ R+G Sbjct: 2257 LGGVIEAYEQVAKRIG 2304 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADH_ECOLI P42593 2,4-dienoyl-CoA reductase [NADPH] (1.3.1.34) (2,4-dienoyl coenzyme A reductase) (672 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +1 Query: 182 DQWGGD 187 ++WGGD Sbjct: 6922 EEWGGD 6939 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADI_ECOLI P76503 3-ketoacyl-CoA thiolase (2.3.1.16) (Fatty acid oxidation complex subunit beta) (Beta-ketothiolase) (Acetyl-CoA acyltransferase) (Acyl-CoA ligase) (ACSs) (436 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = -1 Query: 376 VDDSKFNVLGGSIAYGHPF 394 + S +L + +YGHP+ Sbjct: 1333 ISYSNVTLLSVTFSYGHPY 1277 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -3 Query: 409 LRRRGGGFGL 418 LRR G FGL Sbjct: 6890 LRRSGSAFGL 6861 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADJ_ECOLI P77399 Fatty acid oxidation complex subunit alpha (Enoyl-CoA hydratase/3-hydroxybutyryl-CoA epimerase) (4.2.1.17) (5.1.2.3) (3-hydroxyacyl-CoA dehydrogenase) (1.1.1.35) (714 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 10/13 (76%) Frame = +2 Query: 44 KQLRENKELRGVV 56 +QLR NKE+ VV Sbjct: 3827 RQLRMNKEILAVV 3865 Score = 18.9 bits (37), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 450 PVEKMPLVEIIPH 462 PV+K P ++PH Sbjct: 256 PVDKAPSFHLLPH 218 Score = 18.9 bits (37), Expect = 4.1, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 19/36 (52%) Frame = +3 Query: 8 TLNVRLDNIAVITIDVPGEKMNTLKAEFASQVRAII 43 TL + +DN +T+D + A+ + QV A++ Sbjct: 3465 TLRIYIDNCDGVTVD--------MCADVSYQVSAVL 3548 Score = 17.7 bits (34), Expect = 7.0, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +2 Query: 267 DAEARAFGELAMTPQSQ 283 +AE + ELA P+S+ Sbjct: 4994 EAEFSSLEELAYVPESE 5044 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADK_ECOLI P38135 Short-chain-fatty-acid--CoA ligase (6.2.1.-) (Acyl-CoA synthetase) (548 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADL_ECOLI P10384 Long-chain fatty acid transport protein (Outer membrane fadL protein) (Outer membrane flp protein) (Precursor) (446 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FADR_ECOLI P0A8V6 Fatty acid metabolism regulator protein (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%), Gaps = 1/14 (7%) Frame = -2 Query: 182 NPEARS-LALGFYH 194 NP+ S L +GFYH Sbjct: 2307 NPDTFSNLLIGFYH 2266 Score = 16.5 bits (31), Expect = 5.0, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 14/23 (60%) Frame = +1 Query: 150 RGLAFASGNPIYGLILNGMKGLY 172 R + F+ YG+ ++ ++GLY Sbjct: 5167 RLVKFSKFRS*YGIQISSVRGLY 5235 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FBPB_ECOLI P75681 Putative ferric transport system permease protein fbpB (Fragment) (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FBPC_ECOLI P37009 Fe(3+) ions import ATP-binding protein fbpC (3.6.3.30) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%) Frame = -2 Query: 233 MASFMGDANLFPATFSDGYVDI 254 ++SF + NL+ TFS G +I Sbjct: 5658 VSSFSTNFNLYRFTFSTGARNI 5593 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FCL_ECOLI P32055 GDP-L-fucose synthetase (1.1.1.271) (GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-reductase) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 16/26 (61%) Frame = +2 Query: 166 LYGPHDNFHPSNSHVIPALLRRFHEA 191 L+G + F+ + S+ P+ + R+H+ Sbjct: 3641 LFGGKNQFNVTYSNAKPS*VARYHQG 3718 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 173 FHPSNSHVIPALLR 186 + PSN PAL + Sbjct: 491 YFPSNQDSKPALFK 450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FCTA_ECOLI P69902 Formyl-coenzyme A transferase (Formyl-CoA transferase) (2.8.3.16) (416 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 13/42 (30%), Positives = 15/42 (35%), Gaps = 2/42 (4%) Frame = -3 Query: 98 HPGAIDHMGFTWEHIQEIN--PRLIFGSIKGFDECSPYVNVK 137 HP I G + N PR GFD PY +K Sbjct: 3359 HPQGIKKKGLIAQSFFSNNKKPR-----NSGFDTTGPYSPLK 3249 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +1 Query: 11 LDFTGVQSGPSCTQMLA 27 + T + S C QMLA Sbjct: 3478 ISITAMASPLICVQMLA 3528 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDHD_ECOLI P32177 Protein fdhD (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 6/35 (17%) Frame = +3 Query: 60 KDLEYFALGFSLS------EGIIESPRDIFGMDVV 88 K L ++ALG SLS II +P G +V Sbjct: 3330 KALFFYALGVSLSTLEQKLTEIISAPVKALGHKLV 3434 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDHE_ECOLI P13024 Protein fdhE (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -3 Query: 203 QIGTTQGLRYLHCNL 217 ++GT + LR CN+ Sbjct: 5606 ELGTFKVLRIFRCNV 5562 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 12/19 (63%) Frame = -1 Query: 146 ASDFSSVSSDKAPFIWAAL 164 ++DF + S + PF++ L Sbjct: 4312 STDFFNGSCNNFPFLFTKL 4256 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDHF_ECOLI P07658 Formate dehydrogenase H (1.2.1.2) (Formate-hydrogen-lyase-linked, selenocysteine-containing polypeptide) (Formate dehydrogenase-H subunit alpha) (FDH-H) (715 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 5 VTVCPYCASGCKIN 18 VT+ P C+ C I Sbjct: 4287 VTIFPSCSRNCSIT 4246 Score = 18.1 bits (35), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = +2 Query: 137 ARVUHGPSVAG 147 AR H P VAG Sbjct: 3095 ARRAHNPKVAG 3127 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDNG_ECOLI P24183 Formate dehydrogenase, nitrate-inducible, major subunit (1.2.1.2) (Formate dehydrogenase-N subunit alpha) (FDH-N subunit alpha) (Anaerobic formate dehydrogenase major subunit) (Precursor) (1015 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 6.7, Method: Compositional matrix adjust. Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 1/40 (2%) Frame = +2 Query: 609 TEVFRLPSTCFAE-EDGSIANSGRWLQWHWKGQDAPGEAR 647 T V + S A+ +D + + W++W+ +D P R Sbjct: 854 TTVMQNESLPIADRQDANQTLTTDWIKWNRADEDVPFAGR 973 Score = 18.5 bits (36), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 9/22 (40%) Frame = -1 Query: 337 SWNYQLDENGYAKRDETLTHPR 358 +W L NG+ HP+ Sbjct: 3898 TWKGFLIRNGFYNSQNLFVHPK 3833 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDNH_ECOLI P0AAJ3 Formate dehydrogenase, nitrate-inducible, iron-sulfur subunit (Formate dehydrogenase-N subunit beta) (FDH-N subunit beta) (Anaerobic formate dehydrogenase iron-sulfur subunit) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 13/21 (61%) Frame = -2 Query: 208 YEHAGVYNPEGVGGTHVMYVL 228 Y H+ Y+P GV +++++ Sbjct: 2526 YVHSCTYSPYGVTT*KMLFIM 2464 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 178 TCPTGAIHFGTKK 190 +CP H G+KK Sbjct: 5095 SCPECTDHIGSKK 5133 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = -3 Query: 37 STCIGCKACQV 47 STC C AC V Sbjct: 5735 STCSTCFACSV 5703 Score = 16.2 bits (30), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = +3 Query: 60 GHCVGVYDNPADLSAKSW 77 GH +G ++ L SW Sbjct: 4617 GHVLGCGEHVFKLCLTSW 4670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDNI_ECOLI P0AEK7 Formate dehydrogenase, nitrate-inducible, cytochrome b556(fdn) subunit (Formate dehydrogenase-N subunit gamma) (FDH-N subunit gamma) (Anaerobic formate dehydrogenase cytochrome b556 subunit) (217 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 24 CFFLVALSG 32 CFFLVA++ Sbjct: 3954 CFFLVAVAN 3928 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDOG_ECOLI P32176 Formate dehydrogenase-O major subunit (1.2.1.2) (Formate dehydrogenase-O subunit alpha) (FDH-Z subunit alpha) (Aerobic formate dehydrogenase major subunit) (Precursor) (1016 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 9/22 (40%) Frame = -1 Query: 337 SWTYELDENGFAKRDTTLQHPR 358 +W L NGF HP+ Sbjct: 3898 TWKGFLIRNGFYNSQNLFVHPK 3833 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDOH_ECOLI P0AAJ5 Formate dehydrogenase-O iron-sulfur subunit (Formate dehydrogenase-O subunit beta) (FDH-Z subunit beta) (Aerobic formate dehydrogenase iron-sulfur subunit) (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +1 Query: 178 TCPTGAIHFGTKESMK 193 +CP H G+K+ K Sbjct: 5095 SCPECTDHIGSKKRRK 5142 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -3 Query: 204 KTRGYDNAGLYDP 216 + G+D G Y P Sbjct: 3293 RNSGFDTTGPYSP 3255 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDOI_ECOLI P0AEL0 Formate dehydrogenase, cytochrome b556(fdo) subunit (Formate dehydrogenase-O subunit gamma) (FDH-Z subunit gamma) (Aerobic formate dehydrogenase cytochrome b556 subunit) (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 8/14 (57%) Frame = +2 Query: 184 GWVTSAWAKKHHPR 197 GW + + H+P+ Sbjct: 3077 GWSSLVARRAHNPK 3118 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FDRA_ECOLI Q47208 Protein fdrA (555 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.2, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 16/27 (59%), Gaps = 2/27 (7%) Frame = +3 Query: 514 INIGLRS--FALELQSASKPVVHYQWS 538 +N L+S ++E Q S+P V +WS Sbjct: 3954 MNKKLKSGLISIEKQEISRPSVVGKWS 4034 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEAB_ECOLI P80668 Phenylacetaldehyde dehydrogenase (PAD) (1.2.1.39) (499 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.46, Method: Compositional matrix adjust. Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%) Frame = +2 Query: 269 VTLELGGKNPAIVLKDADP-QWVIEGL 294 V+ ELGG+ IVL D +P Q+V+ + Sbjct: 4655 VSNELGGERIDIVLWDDNPAQFVLNAM 4735 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +1 Query: 346 NPLVSRAHC 354 +P+VS A+C Sbjct: 1990 DPIVSEAYC 2016 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 341 PVAQINPLV 349 PVA NP++ Sbjct: 89 PVASFNPMI 63 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEAR_ECOLI Q47129 Transcriptional activator feaR (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -1 Query: 149 QLSHRLLQESMN 160 QL+HRLL +N Sbjct: 2290 QLAHRLLSHRLN 2255 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +1 Query: 19 VCGNFTGRLLTERYTGVL 36 +CG+ GR+ T Y +L Sbjct: 2482 LCGDPIGRIGTTMYVTLL 2535 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FECA_ECOLI P13036 Fe(3+) dicitrate transport protein fecA (Iron(III) dicitrate transport protein fecA) (Precursor) (774 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 362 PYDRFWGRRKLASL 375 P DR WG + ASL Sbjct: 899 PDDRRWGGSRFASL 858 Score = 18.1 bits (35), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -1 Query: 653 KGDTYGNLVPFSP 665 KGD + VPF P Sbjct: 964 KGDIFIGSVPFYP 926 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FECB_ECOLI P15028 Fe(3+) dicitrate-binding periplasmic protein (Iron(III) dicitrate-binding periplasmic protein) (Precursor) (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -2 Query: 277 IFAAERI 283 +FAAERI Sbjct: 3264 LFAAERI 3244 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FECC_ECOLI P15030 Fe(3+) dicitrate transport system permease protein fecC (Iron(III) dicitrate transport system permease protein fecC) (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -2 Query: 20 IIFWLSLFCYSAIPVS 35 IIF ++ FC AI S Sbjct: 531 IIFIITDFCNIAIIFS 484 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FECD_ECOLI P15029 Fe(3+) dicitrate transport system permease protein fecD (Iron(III) dicitrate transport system permease protein fecD) (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FECE_ECOLI P15031 Fe(3+) dicitrate transport ATP-binding protein fecE (Iron(III) dicitrate transport ATP-binding protein fecE) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.64, Method: Compositional matrix adjust. Identities = 14/46 (30%), Positives = 21/46 (45%) Frame = +1 Query: 21 VSLSLPTGKITALIGPNGCGKSTLLNCFSRLLMPQSGTVFLGDNPI 66 V+ ++ G +T L GK T + LMP +F+ NPI Sbjct: 208 VTANVAAGGMTELCQRVAEGKFTEAGRLNERLMPLHKELFIEANPI 345 Score = 19.2 bits (38), Expect = 0.95, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -1 Query: 34 IGPNGCGKSTLLNCF 48 I PN + T NC+ Sbjct: 4834 IAPNRLCRITFFNCY 4790 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +2 Query: 155 QNTPVVLLDEPTTYLD 170 QNTP+ E TY++ Sbjct: 4106 QNTPISTESEIPTYIE 4153 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -3 Query: 189 KTVVAVLHDLNQASRY 204 +++ + HD N SRY Sbjct: 1112 QSIYST*HDCNVVSRY 1065 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FECI_ECOLI P23484 Probable RNA polymerase sigma factor fecI (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.6, Method: Composition-based stats. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -2 Query: 116 SMLDGLN 122 SMLDGL+ Sbjct: 6816 SMLDGLD 6796 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FECR_ECOLI P23485 Protein fecR (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = +1 Query: 242 WTKDILSFSDKPLG 255 W+K LSFS + LG Sbjct: 4834 WSKCTLSFSAEWLG 4875 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = -1 Query: 72 LHDTRLTRR 80 LHD LTRR Sbjct: 6190 LHDLLLTRR 6164 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FENR_ECOLI P28861 Ferredoxin--NADP reductase (FNR) (1.18.1.2) (Flavodoxin reductase) (FLXR) (FLDR) (Methyl viologen resistance protein A) (DA1) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEOA_ECOLI P0AEL3 Ferrous iron transport protein A (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = -3 Query: 17 EISPAYRQKLLSLGMLPGSSFN 38 ++SP +LS P +SFN Sbjct: 137 KLSPTLGFIMLSRSKFPVASFN 72 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEOB_ECOLI P33650 Ferrous iron transport protein B (773 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 28 0.007 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 28.1 bits (61), Expect = 0.007, Method: Compositional matrix adjust. Identities = 15/64 (23%), Positives = 33/64 (51%) Frame = +1 Query: 6 IGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTT 65 + ++G+ + GKT+L + + ++ G G+T T + VT +D PG + T+ Sbjct: 6538 VTIMGHVDHGKTSLLDCIRSTKVAAGEAGGITQHIGAYHVETENGMVTFLDTPGHAAFTS 6717 Query: 66 ISSQ 69 + ++ Sbjct: 6718 MRAR 6729 Score = 20.8 bits (42), Expect = 0.90, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 16/29 (55%) Frame = +2 Query: 156 IEALKLAIDRYKANENVELVHYAQPLLNE 184 +++L L N+E+ HY + +LN+ Sbjct: 1019 VKSLGLQQQEKMVTSNIEIQHYNRAMLNK 1105 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEOC_ECOLI P64638 Ferrous iron transport protein C (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.8, Method: Composition-based stats. Identities = 4/4 (100%), Positives = 4/4 (100%) Frame = +1 Query: 53 PDGC 56 PDGC Sbjct: 2188 PDGC 2199 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEPA_ECOLI P05825 Ferrienterobactin receptor (Enterobactin outer-membrane receptor) (Precursor) (746 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +2 Query: 180 DAYFNAPEHKEEGATK 195 +AY NAP K A++ Sbjct: 605 EAYLNAPALKRLNASQ 652 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEPB_ECOLI P0AEL6 Ferrienterobactin-binding periplasmic protein (Precursor) (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEPC_ECOLI P23878 Ferric enterobactin transport ATP-binding protein fepC (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -3 Query: 252 VAGTPLVVP 260 ++G PL+VP Sbjct: 782 LSGNPLIVP 756 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEPD_ECOLI P23876 Ferric enterobactin transport system permease protein fepD (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = +1 Query: 96 GVNAGASFAIVLGAALFGYSSA 117 G + GASF + LFG S + Sbjct: 2596 GADMGASFGAGASSTLFGSSGS 2661 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEPE_ECOLI P26266 Ferric enterobactin transport protein fepE (377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +2 Query: 29 LLNLISVLW 37 ++ +ISVLW Sbjct: 518 MIKIISVLW 544 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FEPG_ECOLI P23877 Ferric enterobactin transport system permease protein fepG (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.19, Method: Compositional matrix adjust. Identities = 28/114 (24%), Positives = 50/114 (43%) Frame = +1 Query: 32 VTLETSQVFAALMGDAPRSMTMVVTEWRLPRVLMALLIGAALGVSGAIFQSLMRNPLGSP 91 + ET+Q+ A MG ++ E L LM+ +GV+G +S +R P+ + Sbjct: 6397 IDQETAQLVAEEMG----HKVILRRENELEEALMS---DRDMGVAG---ESALRAPVVT- 6543 Query: 92 DVMGFNTGAWSGVLVAMVLFGQDLTAIALSAMVGGIVTSLLVWLLAWRNGIDTF 145 +MG + +L + T +A + GGI + + + NG+ TF Sbjct: 6544 -IMGHVDHGKTSLLDCIRS-----TKVA-AGEAGGITQHIGAYHVETENGMVTF 6684 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 15/27 (55%) Frame = -2 Query: 127 IVTSLLVWLLAWRNGIDTFRLIIIGIG 153 IVT L ++ + +D+F L I +G Sbjct: 1698 IVTELQHQIIRIFSSVDSFSLSAIQLG 1618 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FER_ECOLI P0A9R4 2Fe-2S ferredoxin (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -3 Query: 68 QEDDMLDKAWGLEPESRLSC 87 +E D+ + G EP+ SC Sbjct: 3143 REPDLNQRPSGYEPDELPSC 3084 Score = 16.2 bits (30), Expect = 2.5, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -1 Query: 8 PHQDLCP 14 PH + CP Sbjct: 4636 PHPNTCP 4616 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FES_ECOLI P13039 Enterochelin esterase (Ferric enterobactin esterase) (374 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 275 VLSQSGSYWWPH 286 +LSQ S++W H Sbjct: 1564 ILSQK*SHYWSH 1599 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FETP_ECOLI P0A8P3 Probable Fe(2+)-trafficking protein (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 21 LYPGELG 27 L+P ELG Sbjct: 5618 LFPPELG 5598 Score = 14.6 bits (26), Expect = 6.1, Method: Composition-based stats. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +3 Query: 8 TFLQREAEG 16 TF+ AEG Sbjct: 3219 TFIGSHAEG 3245 Score = 14.6 bits (26), Expect = 6.9, Method: Composition-based stats. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = +3 Query: 64 KLLEQEMVNFLFEGKE 79 K ++ EM+ +GK+ Sbjct: 3714 KAVDGEMIIVTVDGKD 3761 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHIA_ECOLI Q47153 Putative protein fhiA (579 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHLA_ECOLI P19323 Formate hydrogenlyase transcriptional activator (692 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHUA_ECOLI P06971 Ferrichrome-iron receptor (Ferric hydroxamate uptake) (Ferric hydroxamate receptor) (Precursor) (747 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 544 NIFAPSKGKQ 553 N+F PS GK+ Sbjct: 1718 NVFKPSIGKE 1747 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHUB_ECOLI P06972 Iron(3+)-hydroxamate import system permease protein fhuB (Iron(III)-hydroxamate import system permease protein fhuB) (Ferrichrome transport system permease protein fhuB) (Ferrichrome uptake protein fhuB) (Ferric hydroxamate uptake protein B) (660 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.50, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 15/31 (48%) Frame = -3 Query: 143 PVTLILAGLVVSLYCGAINQLLVIFHHDQLQ 173 P T+I S YCG + +FHH LQ Sbjct: 5372 PATVITHYRQTSRYCGLP*LIYRLFHHLALQ 5280 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHUC_ECOLI P07821 Iron(3+)-hydroxamate import ATP-binding protein fhuC (3.6.3.34) (Iron(III)-hydroxamate import ATP-binding protein fhuC) (Ferrichrome transport ATP-binding protein fhuC) (Ferric hydroxamate uptake protein C) (265 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 206 HDINMAARY 214 HD N+ +RY Sbjct: 1091 HDCNVVSRY 1065 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +3 Query: 109 GRYPWHGAL 117 GR+ W G L Sbjct: 2607 GRFIWSGCL 2633 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHUD_ECOLI P07822 Iron(3+)-hydroxamate-binding protein fhuD (Iron(III)-hydroxamate-binding protein fhuD) (Ferrichrome-binding periplasmic protein) (Ferric hydroxamate uptake protein D) (Precursor) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 15/26 (57%) Frame = +2 Query: 242 NSKDMDALMATPLWQAMPFVRAGRFQ 267 NS+D DAL A P +++G +Q Sbjct: 1343 NSRDWDALGAQD-----PKLKSGSYQ 1405 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 5/20 (25%), Positives = 13/20 (65%) Frame = -1 Query: 19 SPLLWQMNTAHAAAIDPNRI 38 + L W + +AH + + P+++ Sbjct: 3544 TALTW*LTSAHISTVTPSQL 3485 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 8/33 (24%) Frame = +1 Query: 74 LPDSVID-------VGLRTEP-NLELLTEMKPS 98 LP++V+ +GL+ NLE L+ +KPS Sbjct: 25 LPETVVRLAQIPNIIGLKEATGNLERLSMIKPS 123 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 150 AAETHLAQ 157 A+E HLAQ Sbjct: 2032 ASEAHLAQ 2055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHUE_ECOLI P16869 FhuE receptor (Outer-membrane receptor for Fe(III)-coprogen, Fe(III)-ferrioxamine B and Fe(III)-rhodotrulic acid) (Precursor) (729 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -3 Query: 419 IFPDEIGSF 427 +FP E+G+F Sbjct: 5618 LFPPELGTF 5592 Score = 17.7 bits (34), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +3 Query: 502 INDNWSTYASYTS 514 I++ WSTY+S S Sbjct: 1701 ISNGWSTYSSLRS 1739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FHUF_ECOLI P39405 Ferric iron reductase protein fhuF (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.14, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 13/28 (46%) Frame = -3 Query: 227 PLWRTVVLRDGLLVRRTCCQRYRLPDVQ 254 P+W D + + CQ Y+ P ++ Sbjct: 5123 PMWSVHSGHDHAALEASFCQNYQFPVIR 5040 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = +2 Query: 135 VACFWVDV 142 +ACFW+ + Sbjct: 3023 IACFWMMI 3046 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +2 Query: 256 CGDCTLK 262 CG CTL+ Sbjct: 5222 CGVCTLE 5242 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIC_ECOLI P20605 Probable adenosine monophosphate-protein transferase fic (2.7.7.n1) (Cell filamentation protein fic) (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.31, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 12/23 (52%) Frame = +1 Query: 81 DIYQGDTPFCHFAYIEKEGNALM 103 +++QG P C F I + L+ Sbjct: 3442 NLFQGANPHCVFISITAMASPLI 3510 Score = 19.6 bits (39), Expect = 0.53, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +1 Query: 85 GDTPFCHFAYIEKEG 99 GD+PF H + + G Sbjct: 6934 GDSPFVHVSAKKGTG 6978 Score = 18.9 bits (37), Expect = 0.87, Method: Compositional matrix adjust. Identities = 6/25 (24%), Positives = 10/25 (40%) Frame = -1 Query: 67 YQDIFDWAGQLREVDIYQGDTPFCH 91 ++++ W G L Y F H Sbjct: 3913 FKNLLTWKGFLIRNGFYNSQNLFVH 3839 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -1 Query: 81 DIYQGDTPF 89 DI+ G PF Sbjct: 958 DIFIGSVPF 932 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIEF_ECOLI P69380 Ferrous-iron efflux pump fieF (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -3 Query: 219 IDIVTSWPGVS 229 ID+ + PGVS Sbjct: 6719 IDVNAACPGVS 6687 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMA1_ECOLI P04128 Type-1 fimbrial protein, A chain (Type-1A pilin) (Precursor) (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.0, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 1/41 (2%) Frame = +2 Query: 39 VVNAACAVDAGSVDQTVQLGQVRTASLA-QEGATSSAVGFN 78 V+NA + S+ V +T ++A +EG ++ A+G N Sbjct: 4721 VLNAMAPAEVASI---VVDEDAKTMNIAVEEGNSAQAIGRN 4834 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMB_ECOLI P0ADH5 Type 1 fimbriae regulatory protein fimB (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/43 (16%), Positives = 20/43 (46%) Frame = -1 Query: 42 FIHGFRASEICRLRISDIDLKAKCIYIHRLKKGFSTTHPLLNK 84 +I + +CR+ + + C++++ + S H + N+ Sbjct: 4846 YILTIAPNRLCRITFFNCYVHRFCVFVNNDRSYLSWRHSVKNE 4718 Score = 15.8 bits (29), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 32 ARNYCLTLLC 41 +NY L LLC Sbjct: 4817 VQNYLLQLLC 4788 Score = 15.4 bits (28), Expect = 9.5, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -3 Query: 87 QALKNW 92 QALK W Sbjct: 3614 QALKTW 3597 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMC_ECOLI P31697 Chaperone protein fimC (Precursor) (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMD_ECOLI P30130 Outer membrane usher protein fimD (Precursor) (878 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +3 Query: 177 LWDPGINAGL 186 LW P I+AGL Sbjct: 5316 LWQPAISAGL 5345 Score = 19.6 bits (39), Expect = 2.5, Method: Compositional matrix adjust. Identities = 13/63 (20%), Positives = 26/63 (41%) Frame = +2 Query: 112 AQLASMGLNTASVAGMNLLADDACVPLTTMVQDATAHLDVGQQRLNLTIPQAFMSNRARG 171 +QL+ LN ++ N L + T + HL++ ++ + + F S Sbjct: 4856 SQLSGWELNVMTI---NELKEKCQAETRTAIDMFIEHLEIDEECATVLVEAEFSSLEELA 5026 Query: 172 YIP 174 Y+P Sbjct: 5027 YVP 5035 Score = 18.9 bits (37), Expect = 4.7, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = -1 Query: 47 LYFNPRFLADDPQAVADLSRFENG 70 LY+ P FLA + +L+ NG Sbjct: 2473 LYYVPLFLASLKKIANNLNAI*NG 2402 Score = 18.1 bits (35), Expect = 8.6, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 484 SGYFNFADTT 493 +GYF + DTT Sbjct: 1051 NGYFEYRDTT 1080 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIME_ECOLI P0ADH7 Type 1 fimbriae regulatory protein fimE (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 177 ARFAGLW 183 +RFA LW Sbjct: 875 SRFASLW 855 Score = 15.4 bits (28), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 173 ASNAARFAG 181 AS+A RFA Sbjct: 5969 ASSATRFAS 5943 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMF_ECOLI P08189 Protein fimF (Precursor) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMG_ECOLI P08190 Protein fimG (Precursor) (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMH_ECOLI P08191 Protein fimH (Precursor) (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMI_ECOLI P39264 Fimbrin-like protein fimI (Precursor) (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 82 ECSTVVSERV 91 +C TVVS +V Sbjct: 3679 QCKTVVSGKV 3708 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIMZ_ECOLI P0AEL8 Fimbriae Z protein (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FINO_ECOLI P22707 Fertility inhibition protein (Conjugal transfer repressor) (186 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 10/22 (45%) Frame = -1 Query: 66 IYLNLPTLDDAVNTLKPWWPGL 87 IYL LP L P WP L Sbjct: 271 IYLQLPVDKAPSFHLLPHWPLL 206 Score = 15.8 bits (29), Expect = 7.4, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 9/21 (42%) Frame = +1 Query: 126 AITRSESYLCAMKAGACRYDT 146 AIT CA CR+ T Sbjct: 664 AITAWNLRYCASITARCRWQT 726 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIS_ECOLI P0A6R3 DNA-binding protein fis (Factor-for-inversion stimulation protein) (Hin recombinational enhancer-binding protein) (98 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIU_ECOLI P75780 Catecholate siderophore receptor fiu (TonB-dependent receptor fiu) (Ferric iron uptake protein) (Precursor) (760 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIXA_ECOLI P60566 Protein fixA (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIXB_ECOLI P31574 Protein fixB (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIXC_ECOLI P68644 Protein fixC (428 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 11/23 (47%) Frame = -2 Query: 355 GPLRDMRMYQKLPAFLDNPRMFS 377 GP R+ K+P RMFS Sbjct: 4449 GPRASGRISYKIPLMRSPGRMFS 4381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FIXX_ECOLI P68646 Ferredoxin-like protein fixX (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.3, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +3 Query: 81 WEYPRGTFG 89 +E+P +FG Sbjct: 1224 YEHPTPSFG 1250 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FKBA_ECOLI P45523 FKBP-type peptidyl-prolyl cis-trans isomerase fkpA (PPIase) (Rotamase) (5.2.1.8) (Precursor) (270 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 4/42 (9%) Frame = +1 Query: 45 DQKSAYALGASLGRYM----ENSLKEQEKLGIKLDKDQLIAG 82 DQ++A + +G + EN L+E + D+D +AG Sbjct: 6400 DQETAQLVAEEMGHKVILRRENELEE----ALMSDRDMGVAG 6513 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FKBB_ECOLI P0A9L3 FKBP-type 22 kDa peptidyl-prolyl cis-trans isomerase (PPIase) (Rotamase) (FKBP22) (5.2.1.8) (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FKBX_ECOLI P0AEM0 FKBP-type 16 kDa peptidyl-prolyl cis-trans isomerase (PPIase) (Rotamase) (5.2.1.8) (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = +2 Query: 136 FDIEVLEIDPAL 147 F IEV EID L Sbjct: 4496 FRIEVPEIDEEL 4531 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLAV_ECOLI P61949 Flavodoxin-1 (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLAW_ECOLI P0ABY4 Flavodoxin-2 (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.90, Method: Compositional matrix adjust. Identities = 17/62 (27%), Positives = 21/62 (33%) Frame = +3 Query: 91 LGYGEWFLDALGMLHDKLSTKGVKFVGYWPTEGYEFTSPKPVIADGQLFVGLALDETNQY 150 LGY F ALG+ L K + + PV A G VG+ Q Sbjct: 3321 LGYKALFFYALGVSLSTLEQKLTEIIS------------APVKALGHKLVGVEFIPGRQS 3464 Query: 151 DL 152 L Sbjct: 3465 TL 3470 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGA_ECOLI P75933 Flagella basal body P-ring formation protein flgA (Precursor) (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 12/24 (50%) Frame = -2 Query: 24 LTSQLHNFFSAQLAGVSDEVRVSI 47 L+ Q F++ VSD RVS Sbjct: 5856 LSRQFFLFYNRLTFCVSDFFRVSF 5785 Score = 15.4 bits (28), Expect = 9.6, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = -3 Query: 123 DTLPPRTVL 131 DTLP TVL Sbjct: 3710 DTLPLTTVL 3684 Score = 15.4 bits (28), Expect = 9.7, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = +2 Query: 88 QVNVQATGNY 97 Q+N++ G Y Sbjct: 5552 QINLRCNGKY 5581 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGB_ECOLI P0ABW9 Flagellar basal-body rod protein flgB (Putative proximal rod protein) (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGC_ECOLI P0ABX2 Flagellar basal-body rod protein flgC (Putative proximal rod protein) (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGD_ECOLI P75936 Basal-body rod modification protein flgD (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 13/64 (20%), Positives = 28/64 (43%), Gaps = 3/64 (4%) Frame = +2 Query: 123 PFGVELQQ---AADKVTATITDKNGAVVRTIDIGELTAGVHSFTWDGTLTDGSTAPNGSY 179 P+ + Q+ A K+ T+T ++ + +I + ++S WD +GSY Sbjct: 1232 PYAIVWQRLPPALAKIGMTVTKRDR---QQGNIAVTYSPINSRDWDALGAQDPKLKSGSY 1402 Query: 180 NVAI 183 + + Sbjct: 1403 QLQV 1414 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -2 Query: 151 DIGELTAGVHSF 162 DIG+L+ H F Sbjct: 66 DIGDLS*SHHRF 31 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGE_ECOLI P75937 Flagellar hook protein flgE (402 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 289 VSYQIND 295 +SYQ+ND Sbjct: 2065 LSYQVND 2085 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGF_ECOLI P75938 Flagellar basal-body rod protein flgF (Putative proximal rod protein) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGG_ECOLI P0ABX5 Flagellar basal-body rod protein flgG (Distal rod protein) (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -3 Query: 22 IANNLANVS 30 I NN+AN++ Sbjct: 2711 IKNNVANIA 2685 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGH_ECOLI P0A6S0 Flagellar L-ring protein (Basal body L-ring protein) (Precursor) (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +2 Query: 104 FGFDTVPRY 112 +GF + PRY Sbjct: 2984 YGFKSRPRY 3010 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGI_ECOLI P0A6S3 Flagellar P-ring protein (Basal body P-ring protein) (Precursor) (365 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGJ_ECOLI P75942 Peptidoglycan hydrolase flgJ (3.2.1.-) (Muramidase flgJ) (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.17 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.17, Method: Compositional matrix adjust. Identities = 14/48 (29%), Positives = 20/48 (41%) Frame = +1 Query: 174 ILAQAALESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEY 221 ++A L+ G G S LFG SGN+ +T I T + Sbjct: 2563 LIALIVLQQGKGADMGASFGAGASSTLFGSSGSGNFMTRMTAILATLF 2706 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/25 (24%), Positives = 14/25 (56%) Frame = -1 Query: 288 TNMIQQMKSISDKVSKTYSMNIDNL 312 TN+ + + ++ +S + N+D L Sbjct: 3433 TNLCPKAFTGAEIISVNFCSNVDKL 3359 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGK_ECOLI P33235 Flagellar hook-associated protein 1 (HAP1) (547 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGL_ECOLI P29744 Flagellar hook-associated protein 3 (HAP3) (Hook-filament junction protein) (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGM_ECOLI P0AEM4 Negative regulator of flagellin synthesis (Anti-sigma-28 factor) (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLGN_ECOLI P43533 Flagella synthesis protein flgN (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLHA_ECOLI P76298 Flagellar biosynthesis protein flhA (692 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.3, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = -2 Query: 584 RAITQQWFPGKD 595 +AI+ W+ G+D Sbjct: 3030 QAISMNWYRGRD 2995 Score = 18.1 bits (35), Expect = 5.2, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +3 Query: 111 VEAFGHFLVG 120 V+A GH LVG Sbjct: 3408 VKALGHKLVG 3437 Score = 17.7 bits (34), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -3 Query: 392 KKFAQEMGFLPPVVH 406 +KF M L PV+H Sbjct: 686 RKFHAVMAGLSPVMH 642 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLHB_ECOLI P76299 Flagellar biosynthetic protein flhB (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 7/16 (43%) Frame = -3 Query: 228 DEFKQSEGDPHVKGRI 243 D E PH GRI Sbjct: 6959 DT*TNGESPPHSSGRI 6912 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 10/16 (62%), Positives = 12/16 (75%), Gaps = 1/16 (6%) Frame = -1 Query: 84 LIREAMLALLP-LISG 98 LIRE M LLP L++G Sbjct: 6961 LIREQMGNLLPTLLAG 6914 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLHC_ECOLI P0ABY7 Flagellar transcriptional activator flhC (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.1, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -2 Query: 149 HQPVGSFACSL 159 H P+GS SL Sbjct: 4623 HAPIGSIRLSL 4591 Score = 15.4 bits (28), Expect = 8.2, Method: Composition-based stats. Identities = 5/20 (25%), Positives = 8/20 (40%) Frame = -2 Query: 138 NCCGGNFITHAHQPVGSFAC 157 +CC H + +F C Sbjct: 6387 DCCHTT*FHHCFNDLRAFNC 6328 Score = 15.4 bits (28), Expect = 9.6, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = +2 Query: 177 ADIIPQLLDEQR 188 ADI LLD R Sbjct: 791 ADISKLLLDNNR 826 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLHD_ECOLI P0A8S9 Transcriptional activator flhD (116 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.7, Method: Composition-based stats. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = +2 Query: 38 INEEMATTLAALTLPQMVKLAE 59 ++ +MA LAA + + LAE Sbjct: 5189 LDRDMAFKLAACGVCTLEDLAE 5254 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLHE_ECOLI P76297 Flagellar protein flhE (Precursor) (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIA_ECOLI P0AEM6 RNA polymerase sigma factor for flagellar operon (Sigma-F factor) (Sigma-27) (Sigma-28) (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIC_ECOLI P04949 Flagellin (498 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +3 Query: 365 DGKTEVVDIDGK 376 DG+ +V +DGK Sbjct: 3723 DGEMIIVTVDGK 3758 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLID_ECOLI P24216 Flagellar hook-associated protein 2 (HAP2) (Filament cap protein) (Flagellar cap protein) (468 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIE_ECOLI P0A8T5 Flagellar hook-basal body complex protein fliE (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIF_ECOLI P25798 Flagellar M-ring protein (552 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.3, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = +2 Query: 227 LNDAQLKYASDVEGRIQRRI 246 L +QLK S + ++QR++ Sbjct: 5732 LRKSQLKQKSRQKVKVQRKL 5791 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIG_ECOLI P0ABZ1 Flagellar motor switch protein fliG (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +3 Query: 268 QPLREKFLRN 277 QPL EKF N Sbjct: 3144 QPLLEKFFSN 3173 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIH_ECOLI P31068 Flagellar assembly protein fliH (228 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.4, Method: Compositional matrix adjust. Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 18/50 (36%) Frame = -3 Query: 165 VHPDD-----------------LQRVDDMLGATLSLHG-WRLRGDPTLHP 196 +HPDD + R DD + + W L G+P + P Sbjct: 905 LHPDDRRWGGSRFASLW*FVTIMYRFDDYCLTIIY*YQQWTLSGNPLIVP 756 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLII_ECOLI P52612 Flagellum-specific ATP synthase (3.6.3.14) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -3 Query: 29 GRLTRATGLV 38 RLT ATGL+ Sbjct: 6278 SRLTTATGLL 6249 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIJ_ECOLI P52613 Flagellar fliJ protein (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.0, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 1/34 (2%) Frame = -2 Query: 95 DIALNSWREKKQRLQAWQT-LQERQSTAALLAEN 127 +IA WR + +W T + + LLA + Sbjct: 2835 NIAARFWRRAYFLIFSWLTQIFPLTALTVLLATH 2734 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIK_ECOLI P52614 Flagellar hook-length control protein (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIL_ECOLI P0ABX8 Flagellar fliL protein (154 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = -3 Query: 48 QRVVPSPVFYALDTFTVNL 66 QRV P P + F V+L Sbjct: 1514 QRVAPQPAHH----FVVDL 1470 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIM_ECOLI P06974 Flagellar motor switch protein fliM (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = -1 Query: 53 ALEIINERFARH 64 A++I+N F+RH Sbjct: 481 AIKIVNPHFSRH 446 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = -2 Query: 200 VNTPFHVEIGNLTGEFNICLP 220 + PF+ G + G + CLP Sbjct: 780 IREPFNSTKG*IGGRMSNCLP 718 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 86 IQPYHEFARNLP 97 +QP+H F LP Sbjct: 6103 LQPWHHFHLLLP 6068 Score = 16.2 bits (30), Expect = 9.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 59 ERFARHFR 66 E+F +HFR Sbjct: 4498 EKFNQHFR 4475 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIN_ECOLI P15070 Flagellar motor switch protein fliN (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.73 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.73, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 10 DNNGAMDDLWAE 21 DNN D LW++ Sbjct: 815 DNNRQNDTLWSQ 850 Score = 15.8 bits (29), Expect = 4.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +2 Query: 5 NNPADD 10 N PADD Sbjct: 5153 NKPADD 5170 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIO_ECOLI P22586 Flagellar protein fliO (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.5, Method: Composition-based stats. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 38 LVKRLG 43 LVKRLG Sbjct: 1906 LVKRLG 1923 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIP_ECOLI P0AC05 Flagellar biosynthetic protein fliP (Precursor) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -2 Query: 17 PLAFAQLPGITS 28 P+A A+LP T+ Sbjct: 4827 PIACAELPSSTA 4792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIQ_ECOLI P0AC07 Flagellar biosynthetic protein fliQ (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 4.4, Method: Composition-based stats. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -3 Query: 78 RTLFTNLPY 86 RTL +PY Sbjct: 5225 RTLLI*MPY 5199 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIR_ECOLI P33135 Flagellar biosynthetic protein fliR (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.71, Method: Compositional matrix adjust. Identities = 12/30 (40%), Positives = 15/30 (50%) Frame = -3 Query: 143 HLWLISLLVDTFHTLPIGGEPLNSNAFLAL 172 HL +I FH + G P+ AFLAL Sbjct: 713 HLAVILAQYRKFHAVMAGLSPVMH*AFLAL 624 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 11/23 (47%), Positives = 13/23 (56%) Frame = -1 Query: 211 LSIFVIGFPLTLTVGISLMAALM 233 LS FP T+T+ IS ALM Sbjct: 3778 LSANTSSFPSTVTMIISPSTALM 3710 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIS_ECOLI P26608 Flagellar protein fliS (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIT_ECOLI P0ABY2 Flagellar protein fliT (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.4, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 14/17 (82%), Gaps = 2/17 (11%) Frame = +3 Query: 57 STTMQE--QLRPMLRLI 71 ST++++ +L+P+ RLI Sbjct: 4893 STSLRKNAKLKPVQRLI 4943 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIY_ECOLI P0AEM9 Cystine-binding periplasmic protein (CBP) (Protein fliY) (Sulfate starvation-induced protein 7) (SSI7) (Precursor) (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLIZ_ECOLI P52627 Protein fliZ (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLK_ECOLI P15286 Flagellar regulator flk (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 9/10 (90%) Frame = +1 Query: 120 IRHNFGQTPL 129 +RH+FG++ + Sbjct: 4975 VRHSFGRSRI 5004 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLMA_ECOLI P62670 Stable plasmid inheritance protein (F leading maintenance protein) (52 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLMC1_ECOLI P11519 Protein flmC (F-plasmid maintenance protein C) (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +1 Query: 5 HQDSLLL 11 H+DSLLL Sbjct: 3016 HRDSLLL 3036 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FLXA_ECOLI P77609 Protein flxA (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FMT_ECOLI P23882 Methionyl-tRNA formyltransferase (2.1.2.9) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 3/50 (6%) Frame = +1 Query: 219 LSAAQLERCIRAFNPWPMSWLEIEGQPVKV---WKASVIDTATNAAPGTI 265 ++A+ +CI NP +W + W+ +V +ATN+ GTI Sbjct: 619 CTSAKKAQCITGDNPAITAWNLRYCASITARCRWQ-TVRHSATNSTLGTI 765 Score = 17.3 bits (33), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +3 Query: 27 GHNVVGVFTQPDR 39 GH +VGV P R Sbjct: 3420 GHKLVGVEFIPGR 3458 Score = 16.5 bits (31), Expect = 7.3, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +2 Query: 68 SLRPQENQQLVAELQA 83 +L Q+N LVA L+A Sbjct: 1466 TLNQQQNDALVAVLRA 1513 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +2 Query: 227 CIRAFNPWPMS 237 C++ +PW MS Sbjct: 2150 CLKIKSPWVMS 2182 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FNR_ECOLI P0A9E5 Fumarate and nitrate reduction regulatory protein (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.029 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.029, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 12/15 (80%) Frame = -3 Query: 102 DAIGSGHHPSFAQAL 116 A+GSGH PSF+ A+ Sbjct: 6020 SAMGSGHLPSFSAAI 5976 Score = 20.0 bits (40), Expect = 0.50, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%), Gaps = 1/18 (5%) Frame = -2 Query: 107 GHHPSFA-QALETSMVCE 123 GHHP F + M+C+ Sbjct: 6681 GHHPVFGFNVISPDMLCD 6628 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FOCA_ECOLI P0AC23 Probable formate transporter 1 (Formate channel 1) (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%) Frame = +1 Query: 197 LPVAM-FVASGFEHSIANMFMIPMGIVIRD 225 +P M + S E + + MIP+ VIR+ Sbjct: 1801 IPTQMERLLSDNEALVKRLEMIPIECVIRN 1890 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FOCB_ECOLI P77733 Probable formate transporter 2 (Formate channel 2) (282 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FOLB_ECOLI P0AC16 Dihydroneopterin aldolase (DHNA) (4.1.2.25) (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FOLC_ECOLI P08192 Bifunctional protein folC (Folylpolyglutamate synthase) (6.3.2.17) (Folylpoly-gamma-glutamate synthetase) (FPGS) (Tetrahydrofolylpolyglutamate synthase) (Tetrahydrofolate synthase) (Dihydrofolate synthase) (6.3.2.12) (422 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FOLD_ECOLI P24186 Bifunctional protein folD (Methylenetetrahydrofolate dehydrogenase) (1.5.1.5) (Methenyltetrahydrofolate cyclohydrolase) (3.5.4.9) (288 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.40, Method: Compositional matrix adjust. Identities = 15/66 (22%), Positives = 24/66 (36%) Frame = +2 Query: 119 DVDGFHPYNVGRLCQRAPRLRPCTPRGIVTLLERYNIDTFGLNAVVIGASNIVGRPMSME 178 ++D F + L RA + ++T L ++FG N N+ M Sbjct: 5051 EIDSFDKKRLQELRDRA--------QNVLTTLALKKEESFGDNKPADDLLNLASLDRDMA 5206 Query: 179 LLLAGC 184 LA C Sbjct: 5207 FKLAAC 5224 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +1 Query: 184 CTTTVTHRF 192 CT+T+ HR Sbjct: 1222 CTSTLRHRL 1248 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FOLM_ECOLI P0AFS3 Dihydrofolate reductase folM (DHFR) (1.5.1.3) (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 10/27 (37%) Frame = -1 Query: 87 SAWMAEKPGAPLADVLACMMQIHVNTP 113 S W PG D+L H+ P Sbjct: 6148 SVW*FYFPGCDYGDLLQPWHHFHLLLP 6068 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = -2 Query: 127 HGHAASDIIHFTDYVV 142 H + S + FT+Y++ Sbjct: 2127 H*NQTSIVKQFTEYII 2080 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FOLX_ECOLI P0AC19 D-erythro-7,8-dihydroneopterin triphosphate epimerase (5.-.-.-) (Dihydroneopterin triphosphate 2'-epimerase) (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.47, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +1 Query: 106 LRYADSVSMTLSWQ 119 LRY S++ WQ Sbjct: 682 LRYCASITARCRWQ 723 Score = 18.1 bits (35), Expect = 0.70, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 15/24 (62%) Frame = +1 Query: 54 ALNYRTVTKNIIQHVENNRFSLLE 77 AL VT I+ HV++ + SLL+ Sbjct: 6520 ALRAPVVT--IMGHVDHGKTSLLD 6585 Score = 14.6 bits (26), Expect = 7.7, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +3 Query: 94 TYAEVEIDKLHALRY 108 TYA V ++ +RY Sbjct: 4386 TYALVTALEVFCMRY 4430 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FPG_ECOLI P05523 Formamidopyrimidine-DNA glycosylase (Fapy-DNA glycosylase) (3.2.2.23) (DNA-(apurinic or apyrimidinic site) lyase mutM) (AP lyase mutM) (4.2.99.18) (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 100 GKVLRYTDPRR 110 GK+ + TDP R Sbjct: 5251 GKIFQRTDPAR 5219 Score = 16.2 bits (30), Expect = 7.7, Method: Compositional matrix adjust. Identities = 14/84 (16%), Positives = 36/84 (42%), Gaps = 9/84 (10%) Frame = +2 Query: 33 LRWPVSEEIYRLSDQPVLSVQRRAKYLLLELPEGWIIIHLGMSGSLRILPEELPPEKHDH 92 ++W ++E + + +SVQ++ L L ++ LG+ +++ + + ++ Sbjct: 929 IKWNRADEDVPFAGRYQISVQQQGNQLAL------VVKSLGLQQQEKMVTSNIEIQHYNR 1090 Query: 93 ---------VDLVMSNGKVLRYTD 107 +D + SN + TD Sbjct: 1091 AMLNKLIEGLDKIRSNSNNAQNTD 1162 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRDA_ECOLI P00363 Fumarate reductase flavoprotein subunit (1.3.99.1) (602 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 15/27 (55%) Frame = -3 Query: 155 EHFVLDILVDDGHVRGLVAMNMMEGTL 181 EHF+ I +D H +++ ++ TL Sbjct: 3770 EHFIFSIYSNDDH----FSIDSLDDTL 3702 Score = 18.9 bits (37), Expect = 3.0, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 13/25 (52%) Frame = -3 Query: 486 RFKRVRITDTSSVFNTDLLYTIELG 510 RF R+ I TDLL+ ELG Sbjct: 5651 RFLRISIC-------TDLLFPPELG 5598 Score = 18.1 bits (35), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +1 Query: 515 VAECMAHSAMARKES 529 VAE M H + R+E+ Sbjct: 6421 VAEEMGHKVILRREN 6465 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRDB_ECOLI P0AC47 Fumarate reductase iron-sulfur subunit (1.3.99.1) (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 12/27 (44%) Frame = -3 Query: 63 CGSCGMMVNNVPKLACKTFLRDYTDGM 89 CG G+ + + FLR Y G+ Sbjct: 4406 CGHQGVCFHEAAYPPVQLFLRRYYLGL 4326 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -1 Query: 109 HFIESLEAI 117 HF SLE I Sbjct: 2914 HFFRSLEPI 2888 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRDC_ECOLI P0A8Q0 Fumarate reductase subunit C (Fumarate reductase 15 kDa hydrophobic protein) (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.0, Method: Composition-based stats. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +3 Query: 25 FYMLREGTAVPAVWFSIELI 44 +Y+LR T A W + LI Sbjct: 3051 YYLLRFRTRDGAAW*LVGLI 3110 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRDD_ECOLI P0A8Q3 Fumarate reductase subunit D (Fumarate reductase 13 kDa hydrophobic protein) (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.8, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 89 DLKIHVPAGKW 99 DLK+ V KW Sbjct: 1784 DLKLRVSPHKW 1816 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRE_ECOLI P0AEN1 NAD(P)H-flavin reductase (1.5.1.29) (1.16.1.3) (FMN reductase) (NAD(P)H:flavin oxidoreductase) (Aquacobalamin reductase) (Ferrisiderophore reductase C) (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.13, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 3/35 (8%) Frame = +1 Query: 198 IYIAGRFEMAKIARDLFCSERNAREDRL---FGDA 229 I +AGR M + L +E + DRL F DA Sbjct: 5359 ITVAGRNSMTDVTIKLLAAEISTSVDRLIQQFADA 5463 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRLA_ECOLI P45539 Putative fructoselysine transporter frlA (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.60, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 14/27 (51%) Frame = +3 Query: 412 APIPGLICAVIVIATGLPAYAFWAKRS 438 P+ LIC ++ A FW+K++ Sbjct: 4923 KPVQRLICLSNILKLMKSAPQFWSKQN 5003 Score = 20.4 bits (41), Expect = 0.66, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 14/32 (43%) Frame = -2 Query: 205 SWSYTGMASICYMTGEIKNPGKTMPRALIGSC 236 +W I Y +++PG+ R I SC Sbjct: 4455 NWGPRASGRISYKIPLMRSPGRMFSRGSISSC 4360 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = +2 Query: 384 LWRTPAFGLMTTLAIASSL 402 L++TP+FG+ L + L Sbjct: 3272 LYQTPSFGVFCYLKKMTGL 3328 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 3/65 (4%) Frame = -2 Query: 365 NTLTFGSIIWCRKRDDYKPLWRTPAFGLMTTLAIASSLILVASTFV---WAPIPGLICAV 421 N ++ S I+ R RD F L T A + + S V + +PGL+C Sbjct: 3930 NAISNASKIFSRGRD----------FSLETASTTARISLFILSCLV*IFKSGVPGLLCGY 3781 Query: 422 IVIAT 426 ++ T Sbjct: 3780 CLVRT 3766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRLB_ECOLI P0AC00 Fructoselysine 6-phosphate deglycase (3.5.-.-) (340 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.73 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.73, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +2 Query: 74 VYAISGWEFCDNTPYRLDDRC 94 V +SGWE T L ++C Sbjct: 4853 VSQLSGWELNVMTINELKEKC 4915 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = -3 Query: 314 EWLCYYLSIYKDHNPDERRYYGGLV 338 + +C++ + Y RRYY GL+ Sbjct: 4397 QGVCFHEAAYPPVQLFLRRYYLGLI 4323 Score = 16.2 bits (30), Expect = 9.8, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +3 Query: 12 LVTENMVQEVEKVLSHDVP 30 LVT V + VL H+VP Sbjct: 4395 LVTALEVFCMRYVLKHEVP 4451 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRLC_ECOLI P45541 Protein frlC (276 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/18 (27%), Positives = 11/18 (61%) Frame = -3 Query: 73 YPYNMMLGDEHMRRESLD 90 + +++ D+H +SLD Sbjct: 3764 FIFSIYSNDDHFSIDSLD 3711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRLD_ECOLI P45543 Fructoselysine kinase (2.7.1.-) (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRLR_ECOLI P45544 HTH-type transcriptional regulator frlR (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.23, Method: Compositional matrix adjust. Identities = 12/29 (41%), Positives = 17/29 (58%) Frame = +1 Query: 203 LGEPLFRISKIAFDQNDKPVHVSELFCRA 231 L PLF + + DQ P+ VSE +C+A Sbjct: 1942 LNHPLFELF-LKNDQLHDPI-VSEAYCKA 2022 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 14/24 (58%) Frame = +2 Query: 199 LKCELGEPLFRISKIAFDQNDKPV 222 +K + +P R +KIA NDK + Sbjct: 4538 IKAAIRDPASR-AKIAVKTNDKRI 4606 Score = 16.2 bits (30), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +1 Query: 191 ATRPQAKWLKCEL 203 T A+W KC L Sbjct: 4813 CTSDWAQWSKCTL 4851 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRMA_ECOLI P25437 S-(hydroxymethyl)glutathione dehydrogenase (1.1.1.284) (Glutathione-dependent formaldehyde dehydrogenase) (GSH-FDH) (FALDH) (FDH) (1.1.1.-) (Alcohol dehydrogenase class-3) (1.1.1.1) (Alcohol dehydrogenase class-III) (369 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -2 Query: 252 INKWGI 257 +NKWGI Sbjct: 6954 VNKWGI 6937 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 12/32 (37%), Gaps = 12/32 (37%) Frame = +1 Query: 160 NHEHVCLLGC------------GVTTGIGAVH 179 +H LL C G+T IGA H Sbjct: 6559 DHGKTSLLDCIRSTKVAAGEAGGITQHIGAYH 6654 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRMR_ECOLI P0AAP3 Transcriptional repressor frmR (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 6.3, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +1 Query: 55 EVLESHIRETFDRND 69 +VL + E F +ND Sbjct: 1936 QVLNHPLFELFLKND 1980 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRSA_ECOLI P04335 Esterase frsA (3.1.-.-) (414 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 12/21 (57%) Frame = -1 Query: 374 SRLITSSSADGKLLEIPFNPV 394 + LIT+ D + +PF P+ Sbjct: 985 TNLITACKGDIFIGSVPFYPI 923 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 4/40 (10%) Frame = -3 Query: 344 LKVQGLLGR----RCPTPMLSGYWKNDPFSPEEDSRLITS 379 +K +GL+ + P SG+ P+SP ++S +TS Sbjct: 3347 IKKKGLIAQSFFSNNKKPRNSGFDTTGPYSPLKESLGMTS 3228 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +3 Query: 237 SKWKLTQDSSLLHQHVLKA 255 S+ KLT S+L HVL Sbjct: 4578 SQLKLTTSVSIL*GHVLGC 4634 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRUR_ECOLI P0ACP1 Fructose repressor (Catabolite repressor/activator) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 9/21 (42%) Frame = +3 Query: 220 YEREAAAQLFEKWLETHPMPQ 240 Y+R L+ L HP P Sbjct: 1182 YKRHVTIALYPDLLYEHPTPS 1244 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 11/12 (91%) Frame = +1 Query: 163 DQDDAEMLAEEL 174 DQ+ A+++AEE+ Sbjct: 6400 DQETAQLVAEEM 6435 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRVR_ECOLI P32152 Putative frv operon regulatory protein (Putative phosphotransferase EIIA component) (2.7.1.-) (Putative PTS system EIIA component) (582 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FRVX_ECOLI P32153 Putative frv operon protein frvX (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 10/15 (66%) Frame = -1 Query: 333 LIRGFLTTLTAEKVN 347 L GFL +LTA VN Sbjct: 1945 LALGFL*SLTASPVN 1901 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FSAA_ECOLI P78055 Fructose-6-phosphate aldolase 1 (4.1.2.-) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FSAB_ECOLI P32669 Fructose-6-phosphate aldolase 2 (4.1.2.-) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FSR_ECOLI P52067 Fosmidomycin resistance protein (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTNA_ECOLI P0A998 Ferritin-1 (1.16.3.1) (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 15/27 (55%) Frame = -2 Query: 38 GAAAFLRRHAQEEMTHMQRLFDYLTDT 64 GA + RH+ +TH Q F+++ T Sbjct: 6531 GA*SRFTRHSHIAITH-QCFFEFIFTT 6454 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTNB_ECOLI P0A9A2 Ferritin-like protein 2 (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSA_ECOLI P0ABH0 Cell division protein ftsA (420 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.16, Method: Compositional matrix adjust. Identities = 19/79 (24%), Positives = 34/79 (43%) Frame = +2 Query: 147 VGLSGVRMQAKVHLITCHNDMAKNIVKAVERCGLKVDQLIFAGLASSYSVLTEDERELGV 206 VG+ G R+QA N++ G ++D +++ + + + E+ Sbjct: 4625 VGMRGARVQA------VSNELG----------GERIDIVLWDDNPAQFVLNAMAPAEVAS 4756 Query: 207 CVVDIGGGTMDIAVYTGGA 225 VVD TM+IAV G + Sbjct: 4757 IVVDEDAKTMNIAVEEGNS 4813 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSB_ECOLI P0A6S5 Cell division protein ftsB (103 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSE_ECOLI P0A9R7 Cell division ATP-binding protein ftsE (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.23, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 18/30 (60%) Frame = +2 Query: 98 DNVAIPLIIAGASGDDIRRRVSAALDKVGL 127 D+ A+P +I A + +R+ AL K+G+ Sbjct: 1196 DDSALPRLIVRAPYAIVWQRLPPALAKIGM 1285 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 181 EEFNRVGVTVLMATH 195 + F +TVL+ATH Sbjct: 2778 QIFPLTALTVLLATH 2734 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 12/23 (52%) Frame = +1 Query: 21 VTFHMQPGEMAFLTGHSGAGKST 43 VTF PG AF + + ++T Sbjct: 6676 VTFLDTPGHAAFTSMRARGAQAT 6744 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSH_ECOLI P0AAI3 Cell division protease ftsH (3.4.24.-) (644 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSI_ECOLI P0AD68 Peptidoglycan synthetase ftsI (2.4.1.129) (Peptidoglycan glycosyltransferase 3) (Penicillin-binding protein 3) (PBP-3) (Precursor) (588 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.62, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 15/28 (53%) Frame = +1 Query: 53 LVKEGDMRSLRVQQVSTSRGMITDRSGR 80 LVK RS Q+S+ RG+ RS R Sbjct: 5170 LVKFSKFRS*YGIQISSVRGLYAGRSCR 5253 Score = 18.5 bits (36), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -2 Query: 45 LQVISPDMLV 54 VISPDML Sbjct: 6660 FNVISPDMLC 6631 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSK_ECOLI P46889 DNA translocase ftsK (1329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.6, Method: Composition-based stats. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = +2 Query: 184 VTIAEKLGGWILNILT 199 V + +L GW LN++T Sbjct: 4844 VRLVSQLSGWELNVMT 4891 Score = 20.8 bits (42), Expect = 1.9, Method: Composition-based stats. Identities = 11/22 (50%), Positives = 12/22 (54%) Frame = -3 Query: 123 ILTSCGLAAINADDIWYFASGG 144 I T CGLA N D + F S G Sbjct: 3479 INTQCGLAPWNKFDPY*FVSQG 3414 Score = 19.2 bits (38), Expect = 5.4, Method: Composition-based stats. Identities = 9/23 (39%), Positives = 14/23 (60%) Frame = -1 Query: 100 HQSSDEYIDYFAVSLRIIGVLAL 122 H D D+F+ + +I+G LAL Sbjct: 2005 H*QWDRAADHFSKTAQIMGDLAL 1937 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSL_ECOLI P0AEN4 Cell division protein ftsL (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = -2 Query: 28 IGDDLLRFGKLPLC 41 + LLR K P C Sbjct: 1449 VNCTLLRLPKSPTC 1408 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSN_ECOLI P29131 Cell division protein ftsN (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSQ_ECOLI P06136 Cell division protein ftsQ (276 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = +1 Query: 191 AAMTARRSWQLTLNNDIKLNLG 212 A++TAR WQ ++ LG Sbjct: 694 ASITARCRWQTVRHSATNSTLG 759 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +2 Query: 185 RFTLKEAAMTARRSWQ 200 R T+K A +R W+ Sbjct: 2006 RLTVKPLAGLVKRIWR 2053 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSW_ECOLI P0ABG4 Cell division protein ftsW (414 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.39, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 15/25 (60%) Frame = -1 Query: 375 PLISYGGSSLLIMSTAIMMLLRIDY 399 PL+ +GGS ++ ++I L+ Y Sbjct: 5893 PLLPHGGSCHFVVESSIFSFLQSAY 5819 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 9/39 (23%), Positives = 19/39 (48%) Frame = +2 Query: 122 LMIVLVVGSSVKGASRWIDLGLLRIQPAELTKLSLFCYI 160 L+ +L+ + + + R I R+Q + +FCY+ Sbjct: 3194 LISILI*KNIYRKSCRGILSAANRVQLYQTPSFGVFCYL 3310 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSX_ECOLI P0AC30 Cell division protein ftsX (352 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +1 Query: 18 DRFRKSVGGSGDGGRNAPKR 37 DRFR ++GG + KR Sbjct: 2239 DRFRGNLGGVIEAYEQVAKR 2298 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSY_ECOLI P10121 Cell division protein ftsY (497 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +2 Query: 362 SVIFDAIQAAKARNIDV 378 SV+FD I A+ + V Sbjct: 4166 SVVFDRITTQTAKQVIV 4216 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FTSZ_ECOLI P0A9A6 Cell division protein ftsZ (383 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUCA_ECOLI P0AB87 L-fuculose phosphate aldolase (4.1.2.17) (L-fuculose-1-phosphate aldolase) (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.6, Method: Compositional matrix adjust. Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%) Frame = +1 Query: 166 KALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFK-TYGL 211 KA A E LAQ+ + + D + L D + ++L FK +GL Sbjct: 2017 KAFGWASEAH-LAQMKKLSYQVNDVLSKLFD-DAGLILVDFKLEFGL 2151 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUCI_ECOLI P69922 L-fucose isomerase (5.3.1.25) (6-deoxy-L-galactose isomerase) (FucIase) (591 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.6, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 13/36 (36%) Frame = -3 Query: 411 PTMKPHWEISQQEADACLAATEWCPAIHEYFRGGGY 446 P PH + S A A E C Y + GY Sbjct: 2501 PMGSPHKKCSLLCASISSIAKEDCKQPQCYLKRSGY 2394 Score = 17.7 bits (34), Expect = 6.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +2 Query: 546 MLRIPVCMHNVEETKV 561 MLR+ C+H V ++ Sbjct: 6701 MLRLHQCVHEVLRQQI 6748 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUCK_ECOLI P11553 L-fuculokinase (2.7.1.51) (L-fuculose kinase) (482 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.076 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.076, Method: Compositional matrix adjust. Identities = 21/66 (31%), Positives = 29/66 (43%), Gaps = 2/66 (3%) Frame = +2 Query: 403 SELLLVGGGSRNTLWNQIKANMLD--IPVKVLDDAETTVAGAALFGWYGVGEFNSPEEAR 460 S+LLL +TLW+QI M + +P+ DA T+ W E + P R Sbjct: 800 SKLLLDNNRQNDTLWSQITTVMQNESLPIADRQDANQTLT-TDWIKWNRADE-DVPFAGR 973 Query: 461 AQIHYQ 466 QI Q Sbjct: 974 YQISVQ 991 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = +3 Query: 395 EKIGHFKASEL 405 E HFK SEL Sbjct: 5574 ENTEHFKCSEL 5606 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUCM_ECOLI P0AEN8 L-fucose mutarotase (5.1.3.n2) (Fucose 1-epimerase) (Type-2 mutarotase) (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUCO_ECOLI P0A9S1 Lactaldehyde reductase (1.1.1.77) (Propanediol oxidoreductase) (383 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.038 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.038, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 18/33 (54%) Frame = +3 Query: 273 YNTPHGVANAILLPHVMRYNADFTGEKYRDIAR 305 Y H V N +L HV++ +F+ KY+ + + Sbjct: 4428 YVLKHEVPNYLLAVHVLKC*LNFSALKYQKLTK 4526 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +2 Query: 127 PTNKPSVPILAIPT 140 P +KP P+L I T Sbjct: 3785 PQSKPGTPLLKI*T 3826 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = +1 Query: 188 ALKAATGVDALTHAIEGYITR 208 ALK+A + L GYIT+ Sbjct: 448 ALKSAGLLS*LLGKYNGYITK 510 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 74 ITVVKEGLGVFQ 85 I KEG G+FQ Sbjct: 173 ILYKKEGKGLFQ 208 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = -3 Query: 185 MPPALKAATGVDALTHAIE 203 +PPA AAT V+ + + E Sbjct: 6629 IPPASPAATLVERMQSSNE 6573 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUCP_ECOLI P11551 L-fucose-proton symporter (L-fucose permease) (6-deoxy-L-galactose permease) (438 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.021 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.4 bits (54), Expect = 0.021, Method: Compositional matrix adjust. Identities = 17/43 (39%), Positives = 25/43 (58%) Frame = -2 Query: 4 TSIQTQSYRAVDKDAGQSRSYIIPFALLCSLFFLWAVANNLND 46 TS+ T R V K + RS + ++ CS FFL AVAN +++ Sbjct: 4041 TSLTTFQRRKVSK-SPVFRSILTRTSISCSCFFLVAVANAISN 3916 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUCR_ECOLI P0ACK8 L-fucose operon activator (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 11/14 (78%) Frame = -3 Query: 194 SMLLKRAAQSLLLI 207 S+L+ AQSLLL+ Sbjct: 4277 SLLVHEIAQSLLLV 4236 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -2 Query: 165 EIDLFIFSC 173 I LFI SC Sbjct: 3855 RISLFILSC 3829 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +3 Query: 67 DPFHIR 72 +PFH+R Sbjct: 3885 NPFHVR 3902 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUMA_ECOLI P0AC33 Fumarate hydratase class I, aerobic (Fumarase) (4.2.1.2) (548 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.55, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 12/18 (66%) Frame = +1 Query: 19 TEYYLLTSEHVSVSEFEG 36 T+Y++ TS+H +E E Sbjct: 6034 TDYHVTTSQHARAAEDEN 6087 Score = 17.7 bits (34), Expect = 6.7, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +1 Query: 268 RDVELEKELLIEAQ 281 R + L KEL IEA Sbjct: 298 RLMPLHKELFIEAN 339 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUMB_ECOLI P14407 Fumarate hydratase class I, anaerobic (Fumarase) (4.2.1.2) (548 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +1 Query: 338 LEHNPGQYIPQEL 350 L+H PGQ +P +L Sbjct: 5527 LKHEPGQ-VPNKL 5562 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUMC_ECOLI P05042 Fumarate hydratase class II (Fumarase C) (4.2.1.2) (467 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 12/16 (75%) Frame = -1 Query: 286 ASLMKIANDVRWLASG 301 ASL KIAN++ + +G Sbjct: 2449 ASLKKIANNLNAI*NG 2402 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FUR_ECOLI P0A9A9 Ferric uptake regulation protein (Ferric uptake regulator) (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 81 ELTQQHHHDHLI 92 +L Q HH HL+ Sbjct: 6109 DLLQPWHHFHLL 6074 Score = 15.0 bits (27), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +1 Query: 7 ALKKAGL 13 ALK AGL Sbjct: 448 ALKSAGL 468 Score = 15.0 bits (27), Expect = 8.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 90 HLICLDCGKV 99 + L CGKV Sbjct: 4520 QFLVLQCGKV 4491 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= FXSA_ECOLI P37147 UPF0716 protein fxsA (Suppressor of F exclusion of phage T7) (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= G3P1_ECOLI P0A9B2 Glyceraldehyde-3-phosphate dehydrogenase A (GAPDH-A) (1.2.1.12) (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 10/21 (47%) Frame = -2 Query: 149 SCTTNCLAPLAKVINDNFGII 169 SC+ NC A+ + F I Sbjct: 4272 SCSRNCSITTARSASRTFCTI 4210 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= G3P3_ECOLI P33898 Putative glyceraldehyde-3-phosphate dehydrogenase C (GAPDH-C) (1.2.1.12) (333 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.030 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.030, Method: Compositional matrix adjust. Identities = 16/39 (41%), Positives = 18/39 (46%), Gaps = 4/39 (10%) Frame = -3 Query: 128 TIVYNVNDDTLDGNDTIVS----VASCTTNCLAPMAKAL 162 TI+Y TL GN IV VA C T C +A L Sbjct: 812 TIIY*YQQWTLSGNPLIVPRVELVAECLTVCQRHLAVIL 696 Score = 23.9 bits (50), Expect = 0.052, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 13/28 (46%) Frame = -3 Query: 51 YGPFPWSVDFTEDSLIVDGKSIAVYAEK 78 Y P S+ T D KSI+VY K Sbjct: 3263 YSPLKESLGMTSDKCFFKSKSISVYLSK 3180 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 4/23 (17%) Frame = -1 Query: 282 IIGSHFGS----VFDATQTEITA 300 I S +GS +FD+ +ITA Sbjct: 1615 IFASQYGSNSVIIFDSRLKKITA 1547 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -2 Query: 149 SCTTNCLAPMAKALHDSF 166 SC+ NC A++ +F Sbjct: 4272 SCSRNCSITTARSASRTF 4219 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= G6PD_ECOLI P0AC53 Glucose-6-phosphate 1-dehydrogenase (G6PD) (1.1.1.49) (491 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.042 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.042, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 15/21 (71%) Frame = -3 Query: 225 YFDKAGQMRDMIQNHLLQILC 245 +FD Q ++QN+LLQ+LC Sbjct: 4844 HFDHCAQ--SLVQNYLLQLLC 4788 Score = 18.9 bits (37), Expect = 2.5, Method: Compositional matrix adjust. Identities = 14/37 (37%), Positives = 16/37 (43%), Gaps = 5/37 (13%) Frame = -1 Query: 187 LLALRFANSL--FVNN---WDNRTIDHVEITVAEEVG 218 LL+L F N L F N W N DH T E+ Sbjct: 4108 LLSLFFTNFLRRF*RNFTCWHNHFTDHFPTTEGLEIS 3998 Score = 17.3 bits (33), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -3 Query: 172 VYRIDHYLGKETVLN 186 +YR+ H+L + LN Sbjct: 5312 IYRLFHHLALQYRLN 5268 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= G6PI_ECOLI P0A6T1 Glucose-6-phosphate isomerase (GPI) (5.3.1.9) (Phosphoglucose isomerase) (PGI) (Phosphohexose isomerase) (PHI) (549 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GABD_ECOLI P25526 Succinate-semialdehyde dehydrogenase [NADP+] (SSDH) (1.2.1.16) (482 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +1 Query: 255 ELGGNAPFI 263 E GG++PF+ Sbjct: 6925 EWGGDSPFV 6951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GABP_ECOLI P25527 GABA permease (4-amino butyrate transport carrier) (Gamma-aminobutyrate permease) (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 12/19 (63%) Frame = -2 Query: 161 IAILAFIFLGAVAISGFYP 179 I+ L IFL VA +GF P Sbjct: 3180 ISYLKKIFLEVVA*AGFEP 3124 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GABT_ECOLI P22256 4-aminobutyrate aminotransferase (2.6.1.19) (Gamma-amino-N-butyrate transaminase) (GABA transaminase) (GABA aminotransferase) (GABA-AT) (L-AIBAT) ((S)-3-amino-2-methylpropionate transaminase) (2.6.1.22) (Glutamate:succinic semialdehyde transaminase) (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.66, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 33 CRVWDVEGREYLD 45 CR+WD + E +D Sbjct: 2197 CRLWDKKTLEKMD 2235 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 223 QRLRALCDEHGIM 235 +RLR +HGI+ Sbjct: 6880 ERLRTELSQHGIL 6918 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GADC_ECOLI P63235 Probable glutamate/gamma-aminobutyrate antiporter (Extreme acid sensitivity protein) (511 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GADE_ECOLI P63204 Transcriptional regulator gadE (175 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GADW_ECOLI P63201 HTH-type transcriptional regulator gadW (242 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.92, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 17/27 (62%) Frame = +2 Query: 146 SFDIAKRWYLRDIAERMYTSESLIKKK 172 SFD + LRD A+ + T+ +L K++ Sbjct: 5060 SFDKKRLQELRDRAQNVLTTLALKKEE 5140 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 148 DIAKRW 153 D+AKRW Sbjct: 1256 DVAKRW 1239 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 232 QFAQHSPGT 240 A+HSPG+ Sbjct: 3552 HLARHSPGS 3526 Score = 16.2 bits (30), Expect = 6.6, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 225 YYGVTPHQ 232 YY ++P+Q Sbjct: 5361 YYALSPNQ 5338 Score = 16.2 bits (30), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = +3 Query: 203 LHTIAEKCGYSS 214 LH+ + CG S Sbjct: 6585 LHSFDQSCGRGS 6620 Score = 15.8 bits (29), Expect = 8.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +3 Query: 51 LDIDELTVCHY 61 LD++E C Y Sbjct: 3546 LDVEEPITCPY 3578 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GADX_ECOLI P37639 HTH-type transcriptional regulator gadX (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 19/100 (19%), Positives = 44/100 (44%), Gaps = 11/100 (11%) Frame = +2 Query: 22 VNGEYRYFNGGDLVFADASQ---IRVDKCVENFVFVSR--------DTLSLFLPMLKEEA 70 V+G+ Y N L +ASQ + + + VS+ D P++ + Sbjct: 593 VSGDEAYLNAPALKRLNASQGIILPLQHGTYDIAQVSQQGAVGKQLDIRPPIQPLVLLKG 772 Query: 71 LNLHAHKKVSSLLVHHCSRDIPVFQEVAQLSQNKNLRYAE 110 + + +S LL+ + ++ ++ ++ + QN++L A+ Sbjct: 773 SRIESTADISKLLLDNNRQNDTLWSQITTVMQNESLPIAD 892 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GAL1_ECOLI P0A6T3 Galactokinase (2.7.1.6) (Galactose kinase) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 10/23 (43%) Frame = +3 Query: 18 PATHTIQAPGRVNLIGEHTDYND 40 P + +PG L+ DY D Sbjct: 3573 PYNLEVSSPGLERLLFTAEDYTD 3641 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GAL7_ECOLI P09148 Galactose-1-phosphate uridylyltransferase (Gal-1-P uridylyltransferase) (2.7.7.12) (UDP-glucose--hexose-1-phosphate uridylyltransferase) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.58 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.58, Method: Compositional matrix adjust. Identities = 22/83 (26%), Positives = 30/83 (36%) Frame = +1 Query: 37 QETPAKQVLPAHDPDCFLCAGNVRVTGDKNPDYTGTYVFTNDFAALMSDTPDAPESHDPL 96 Q + A + AH+ + FLC + G T YV F L+S A L Sbjct: 2431 QSSLAMLEIEAHNKEHFLCGDPIGRIG------TTMYVTLLVFFLLISIGLIA------L 2574 Query: 97 MRCQSARGTSRVICFSPDHSKTL 119 + Q +G F S TL Sbjct: 2575 IVLQQGKGADMGASFGAGASSTL 2643 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 266 YDNLFQC 272 Y+NLF+C Sbjct: 4216 YNNLFRC 4196 Score = 16.5 bits (31), Expect = 9.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -3 Query: 51 DCFLCAGNV 59 CF CA N+ Sbjct: 5537 SCFKCASNI 5511 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 17/35 (48%) Frame = +2 Query: 311 KFMVGYEMLAETQRDLTAEQAAERLRAVSDIHFRE 345 K +V + +T + + ++ E RAV FRE Sbjct: 4163 KSVVFDRITTQTAKQVIVQKVREAERAVVIEQFRE 4267 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GALE_ECOLI P09147 UDP-glucose 4-epimerase (5.1.3.2) (UDP-galactose 4-epimerase) (Galactowaldenase) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 133 KIPYVESFP 141 K P+V SFP Sbjct: 2162 KSPWVMSFP 2188 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GALF_ECOLI P0AAB6 UTP--glucose-1-phosphate uridylyltransferase (2.7.7.9) (UDP-glucose pyrophosphorylase) (UDPGP) (Alpha-D-glucosyl-1-phosphate uridylyltransferase) (Uridine diphosphoglucose pyrophosphorylase) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.023 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.023, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 18/35 (51%) Frame = +2 Query: 78 EQRVKRQLLAEVQSICPPGVTIMNVRQGEPLGLGH 112 EQR KRQ+ + + P + +N QG L L H Sbjct: 572 EQRYKRQVSGDEAYLNAPALKRLNASQGIILPLQH 676 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 122 GDNPFVVV 129 GD+PFV V Sbjct: 6934 GDSPFVHV 6957 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GALM_ECOLI P0A9C3 Aldose 1-epimerase (5.1.3.3) (Galactose mutarotase) (Type-1 mutarotase) (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GALP_ECOLI P0AEP1 Galactose-proton symporter (Galactose transporter) (464 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GALR_ECOLI P03024 HTH-type transcriptional regulator galR (Galactose operon repressor) (343 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.48 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.48, Method: Compositional matrix adjust. Identities = 11/17 (64%), Positives = 13/17 (76%) Frame = -1 Query: 317 NVFSPTLVRRHSVSTPS 333 N FSP LV RHS++T S Sbjct: 4684 NTFSPQLV-RHSLNTCS 4637 Score = 16.2 bits (30), Expect = 9.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -3 Query: 267 ISLIGFDDVLV 277 ISL+GF L+ Sbjct: 2834 ISLLGFGGALI 2802 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GALS_ECOLI P25748 HTH-type transcriptional regulator galS (Mgl repressor and galactose ultrainduction factor) (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GALU_ECOLI P0AEP3 UTP--glucose-1-phosphate uridylyltransferase (2.7.7.9) (UDP-glucose pyrophosphorylase) (UDPGP) (Alpha-D-glucosyl-1-phosphate uridylyltransferase) (Uridine diphosphoglucose pyrophosphorylase) (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.65, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 12/15 (80%) Frame = +1 Query: 128 DEPVAVILPDVILDE 142 ++PVAV+ DVI+ E Sbjct: 6250 NKPVAVVNRDVIIGE 6294 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/37 (27%), Positives = 17/37 (45%) Frame = +2 Query: 83 EKRVKRQLLDEVQSICPPHVTIMQVRQGLAKGLGHAV 119 E+R KRQ+ + + P + + QG+ L H Sbjct: 572 EQRYKRQVSGDEAYLNAPALKRLNASQGIILPLQHGT 682 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GARD_ECOLI P39829 D-galactarate dehydratase (GalcD) (4.2.1.42) (523 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.9, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +3 Query: 211 IGLGCEKLQPERLLTGTDDV 230 +GL + R LT TDD+ Sbjct: 354 VGL*TTGINNSRNLTLTDDI 413 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GARL_ECOLI P23522 5-keto-4-deoxy-D-glucarate aldolase (KDGluc aldolase) (KDGlucA) (4.1.2.20) (5-dehydro-4-deoxy-D-glucarate aldolase) (2-keto-3-deoxy-D-glucarate aldolase) (2-dehydro-3-deoxy-D-glucarate aldolase) (Alpha-keto-beta-deoxy-D-glucarate aldolase) (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.073 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.073, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 13/20 (65%) Frame = -1 Query: 53 NDISTFIPQLMALKGSASAP 72 NDI+TF PQL+ + +P Sbjct: 4693 NDINTFSPQLVRHSLNTCSP 4634 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GARP_ECOLI P0AA80 Probable galactarate transporter (D-galactarate permease) (444 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GARR_ECOLI P0ABQ2 2-hydroxy-3-oxopropionate reductase (1.1.1.60) (Tartronate semialdehyde reductase) (TSAR) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GATD_ECOLI P0A9S3 Galactitol-1-phosphate 5-dehydrogenase (1.1.1.251) (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.64, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -3 Query: 90 FTCPECLKGFYSQCAK 105 F C L GF+S C+ Sbjct: 5768 FACSSALAGFFSTCST 5721 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = +1 Query: 49 GAHYYPITLGHEFS 62 G ITLG EFS Sbjct: 2146 GLFENKITLGDEFS 2187 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 12/27 (44%) Frame = +1 Query: 91 TCPECLKGFYSQCAKYDFIGSRRDGGF 117 +CPEC D IGS++ F Sbjct: 5095 SCPECT----------DHIGSKKRRKF 5145 Score = 16.9 bits (32), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 69 GSGVDDL 75 G+G+DDL Sbjct: 6970 GTGIDDL 6990 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GATR_ECOLI P36930 Galactitol utilization operon repressor (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +1 Query: 177 FVGADGIDAVNGITTF 192 +GA ++ NG+ TF Sbjct: 6637 HIGAYHVETENGMVTF 6684 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GATY_ECOLI P0C8J6 D-tagatose-1,6-bisphosphate aldolase subunit gatY (TagBP aldolase) (TBPA) (4.1.2.40) (Tagatose-bisphosphate aldolase) (D-tagatose-bisphosphate aldolase class II) (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 13/23 (56%) Frame = -2 Query: 214 STKDIQQTIKLGICKINVATELK 236 STK + + + C IN++ ++ Sbjct: 4995 STKTVAHSSSISRCSINISIAVR 4927 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +1 Query: 70 AKQYHHPLAIHLDHHT 85 AKQ HP +LD T Sbjct: 3787 AKQTGHPTFKNLDEAT 3834 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +1 Query: 109 PFAQNISRVKEV 120 PF+ N+S K++ Sbjct: 2317 PFSDNVSANKKI 2352 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GATZ_ECOLI P0C8J8 D-tagatose-1,6-bisphosphate aldolase subunit gatZ (420 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.015 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.8 bits (55), Expect = 0.015, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 15/26 (57%) Frame = +3 Query: 303 IAPENRSGCLAVIEEVMLDEPQYWKK 328 + P R CL+ I ++M PQ+W K Sbjct: 4920 LKPVQRLICLSNILKLMKSAPQFWSK 4997 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCH1_ECOLI P0A6T5 GTP cyclohydrolase 1 (3.5.4.16) (GTP cyclohydrolase I) (GTP-CH-I) (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.76, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 15/27 (55%) Frame = +2 Query: 31 MDNETRKSLIAGHMTEIMQLLNLDLAD 57 +DN + + +T +MQ +L +AD Sbjct: 812 LDNNRQNDTLWSQITTVMQNESLPIAD 892 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCL_ECOLI P0AEP7 Glyoxylate carboligase (4.1.1.47) (Tartronate-semialdehyde synthase) (593 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.1, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 14/34 (41%) Frame = -1 Query: 243 CIPDDHELMAGMVGLQTAHRYGNATLLASDMVFG 276 CIP + + A Y N TLL+ +G Sbjct: 1363 CIP--------ITAVDRAISYSNVTLLSVTFSYG 1286 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCP_ECOLI P05852 Probable O-sialoglycoprotein endopeptidase (Glycoprotease) (3.4.24.57) (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.13, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 17/33 (51%) Frame = -2 Query: 275 LRAKLAEMMKKRRGEVFYARPEFCTDNGAMIAY 307 L A L ++ R+ +FY R FC + +++ Sbjct: 5883 LTAGLVTLLLSRQFFLFYNRLTFCVSDFFRVSF 5785 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 193 GRFVFPRPMT 202 G+F F P+T Sbjct: 276 GKFTFSYPLT 247 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCSH_ECOLI P0A6T9 Glycine cleavage system H protein (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCSP_ECOLI P33195 Glycine dehydrogenase [decarboxylating] (1.4.4.2) (Glycine decarboxylase) (Glycine cleavage system P-protein) (957 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.8, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 16/32 (50%) Frame = +2 Query: 16 ERHIGPDAAQQQEMLNAVGAQSLNALTGQIVP 47 +R + D A LNA + LNA G I+P Sbjct: 584 KRQVSGDEA----YLNAPALKRLNASQGIILP 667 Score = 18.5 bits (36), Expect = 5.6, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 9/15 (60%) Frame = +3 Query: 114 PYQPEVSQGRLEALL 128 PY EVS LE LL Sbjct: 3573 PYNLEVSSPGLERLL 3617 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCST_ECOLI P27248 Aminomethyltransferase (2.1.2.10) (Glycine cleavage system T protein) (364 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +3 Query: 188 GYTGEAGYEIALPNEKA 204 G+TGEA + P+ K+ Sbjct: 1899 GFTGEAVRDYRKPSAKS 1949 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCVA_ECOLI P0A9F6 Glycine cleavage system transcriptional activator (Gcv operon activator) (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 12/42 (28%), Positives = 22/42 (52%) Frame = -1 Query: 39 HQIKSLEDFLGLKLFRRRNRSLLLTEEGQSYFLDIKEIFSQL 80 H +SLE + R +++ +TEE + L+ + +FS L Sbjct: 2914 HFFRSLEPI*NFFVLRYKDKY*SITEEYRCSVLEAR-LFSHL 2792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GCVR_ECOLI P0A9I3 Glycine cleavage system transcriptional repressor (Gcv operon repressor) (190 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 28 HVSSCGCNIEDSRL 41 ++ SC N SRL Sbjct: 1386 NLGSCAPNASQSRL 1345 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GFCA_ECOLI P75885 Threonine-rich inner membrane protein gfcA (Group 4 capsule protein A homolog) (Precursor) (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GFCB_ECOLI P75884 Uncharacterized lipoprotein gfcB (Group 4 capsule protein B homolog) (Precursor) (214 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +3 Query: 59 GQRIFVVLGYIEQEQSKW 76 G+RI + L Q + KW Sbjct: 3648 GERINLTLRIAMQNRRKW 3701 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GFCC_ECOLI P75883 Uncharacterized protein gfcC (Group 4 capsule protein C homolog) (Precursor) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = +3 Query: 226 VLPEKYADLNDQ 237 +L +KYA LN+Q Sbjct: 4209 LLYKKYAKLNEQ 4244 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 11/15 (73%) Frame = -3 Query: 115 RLPVKLDPDFVRVDE 129 +LP LDP+ RV+E Sbjct: 2669 KLPEPLDPN--RVEE 2631 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GFCD_ECOLI P75882 Uncharacterized lipoprotein gfcD (Group 4 capsule protein D homolog) (Precursor) (698 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GFCE_ECOLI P0A932 Putative polysaccharide export protein gfcE (Group 4 capsule protein E homolog) (Precursor) (379 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = -2 Query: 236 RQNKLLHPGD 245 R KLLHP Sbjct: 3099 RATKLLHPAS 3070 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GGT_ECOLI P18956 Gamma-glutamyltranspeptidase (2.3.2.2) (Gamma-glutamyltranspeptidase large chain) (Gamma-glutamyltranspeptidase small chain) (Precursor) (580 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +1 Query: 190 DLKTYGSEVLPN 201 DLK + SEV+P Sbjct: 3208 DLKKHLSEVMPR 3243 Score = 17.7 bits (34), Expect = 6.4, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 1/31 (3%) Frame = +1 Query: 531 PDTLKLLEAKGQKVALKEAMGSTQSI-MVGP 560 P+T+ L + LKEA G+ + + M+ P Sbjct: 28 PETVVRLAQIPNIIGLKEATGNLERLSMIKP 120 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GHRA_ECOLI P75913 Glyoxylate/hydroxypyruvate reductase A (1.1.1.79) (1.1.1.81) (2-ketoacid reductase) (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +1 Query: 38 SADYALVWHPPVEMLAGRD 56 S Y LVW V +AGR+ Sbjct: 5323 SPQYLLVWR*CVITVAGRN 5379 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 4/17 (23%), Positives = 12/17 (70%) Frame = +1 Query: 180 GREELSAFLSQCRVLIN 196 G+E + ++ QC+ +++ Sbjct: 3649 GKESI*RYV*QCKTVVS 3699 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%), Gaps = 2/12 (16%) Frame = +2 Query: 39 ADYALVWH--PP 48 A YA+VW PP Sbjct: 1229 APYAIVWQRLPP 1264 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GHRB_ECOLI P37666 Glyoxylate/hydroxypyruvate reductase B (1.1.1.79) (1.1.1.81) (2-ketogluconate reductase) (2KR) (1.1.1.215) (2-ketoaldonate reductase) (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = -1 Query: 192 CDLDTLLQESDFVCLILP 209 CD LLQ L+LP Sbjct: 6121 CDYGDLLQPWHHFHLLLP 6068 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +2 Query: 178 RHHKEAEERFNARYC 192 R+H+ R + RYC Sbjct: 3704 RYHQGCRWRNDHRYC 3748 Score = 16.5 bits (31), Expect = 6.9, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 8/8 (100%) Frame = -3 Query: 143 VHHKTLGI 150 +HH++LG+ Sbjct: 608 LHHRSLGV 585 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLCA_ECOLI Q46839 Glycolate permease glcA (560 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLCC_ECOLI P0ACL5 Glc operon transcriptional activator (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -1 Query: 183 ASVNNLYHRPQQKK 196 +SV +HRPQQ K Sbjct: 6796 SSVA*PHHRPQQPK 6755 Score = 15.8 bits (29), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 92 RTLYDLLDVR 101 RTL+ DVR Sbjct: 4979 RTLHQFQDVR 4950 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLCD_ECOLI P0AEP9 Glycolate oxidase subunit glcD (499 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.18, Method: Compositional matrix adjust. Identities = 19/59 (32%), Positives = 24/59 (40%), Gaps = 12/59 (20%) Frame = -2 Query: 17 DRTSVLMALREHVPGLEILHTDEEIIPYECDGLSAYR------------TRPLLVVLPK 63 DR S L L H PG LHT Y+ +YR RPLL+ +P+ Sbjct: 3573 DR*SALQHLARHSPGS*HLHT------YQR*RHRSYRYKYAVWIGALE*IRPLLICVPR 3415 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLCE_ECOLI P52073 Glycolate oxidase subunit glcE (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 318 APLSAPL 324 AP+SAPL Sbjct: 2612 APISAPL 2592 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLCF_ECOLI P52074 Glycolate oxidase iron-sulfur subunit (407 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -2 Query: 30 FCTATC 35 FCT TC Sbjct: 4221 FCTITC 4204 Score = 16.5 bits (31), Expect = 8.7, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = -3 Query: 364 NALESGKPEMIVTANIGCQTHLA 386 N L + E++ CQ HLA Sbjct: 773 NPLIVPRVELVAECLTVCQRHLA 705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLCG_ECOLI P0AEQ1 Protein glcG (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.5, Method: Composition-based stats. Identities = 3/7 (42%), Positives = 7/7 (100%) Frame = +1 Query: 24 QKNNWSV 30 +KN+W++ Sbjct: 3310 EKNDWAI 3330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLDA_ECOLI P0A9S5 Glycerol dehydrogenase (GLDH) (GDH) (1.1.1.6) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLF_ECOLI P37747 UDP-galactopyranose mutase (5.4.99.9) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 310 YYPVNDNKNMELFK 323 Y+P N + LFK Sbjct: 491 YFPSNQDSKPALFK 450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLGA_ECOLI P0A6U8 Glycogen synthase (2.4.1.21) (Starch [bacterial glycogen] synthase) (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.72, Method: Compositional matrix adjust. Identities = 22/76 (28%), Positives = 26/76 (34%), Gaps = 8/76 (10%) Frame = -3 Query: 94 PYHDTNLF--------AYTDNVLRFALLGWVGAEMASGLDPFWRPDVVHAHDWHAGLAPA 145 PYHD NL Y N L F L+P W VH+ HA L + Sbjct: 5204 PYHDLNLLNLTSRQRVCYHQNFLLF-------------LEPMWS---VHSGHDHAALEAS 5073 Query: 146 YLAARGRPAKSVFTVH 161 + P F VH Sbjct: 5072 FCQNYQFPVIR-FLVH 5028 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 1/25 (4%) Frame = -1 Query: 371 LVP-SRFEPCGLTQLYGLKYGTLPL 394 LVP + FEP + Y LK LP+ Sbjct: 3013 LVPRTGFEPVSPIEHYHLKVACLPI 2939 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLGB_ECOLI P07762 1,4-alpha-glucan-branching enzyme (2.4.1.18) (Glycogen-branching enzyme) (BE) (1,4-alpha-D-glucan:1,4-alpha-D-glucan 6-glucosyl-transferase) (728 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 660 VPRHDYR 666 +PRHD+R Sbjct: 3246 IPRHDFR 3226 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLGC_ECOLI P0A6V1 Glucose-1-phosphate adenylyltransferase (2.7.7.27) (ADP-glucose synthase) (ADP-glucose pyrophosphorylase) (ADPGlc PPase) (431 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.13, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 17/30 (56%) Frame = +3 Query: 105 QQRMKGENWYRGTADAVTQNLDIIRRYKAE 134 QR KG +RG + + L I+R+Y ++ Sbjct: 621 HQR*KGSMHHRG*SCHYSMELTILRKYHSK 710 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -2 Query: 101 LLPAQQRMKGENWYRG 116 L+ Q++ NWYRG Sbjct: 3048 LIIIQKQAISMNWYRG 3001 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 367 LLPEVWVGRS 376 +LPE W G S Sbjct: 6913 ILPEEWGGDS 6942 Score = 16.9 bits (32), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 371 VWVGRSCR 378 ++ GRSCR Sbjct: 5230 LYAGRSCR 5253 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLGS_ECOLI P26649 Glycogen synthesis protein glgS (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLGX_ECOLI P15067 Glycogen debranching enzyme (3.2.1.-) (Glycogen operon protein glgX) (657 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.26, Method: Compositional matrix adjust. Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 4/54 (7%) Frame = -3 Query: 608 LIAINATLEVTEIVLPAGEWHAIPPFAGEDNPV----ITAVWQGPAHGLCVFQR 657 +I ATL VTEI+ PPF + PV ++ + P G + R Sbjct: 239 VIPPAATLAVTEII-------PCPPFCIKSKPVASSPLSRIKLSPTLGFIMLSR 99 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLK_ECOLI P0A6V8 Glucokinase (2.7.1.2) (Glucose kinase) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +3 Query: 226 SCTDCRRAL 234 +CTDCR +L Sbjct: 2367 ACTDCRLSL 2393 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLMM_ECOLI P31120 Phosphoglucosamine mutase (5.4.2.10) (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLMS_ECOLI P17169 Glucosamine--fructose-6-phosphate aminotransferase [isomerizing] (2.6.1.16) (Hexosephosphate aminotransferase) (D-fructose-6-phosphate amidotransferase) (GFAT) (L-glutamine-D-fructose-6-phosphate amidotransferase) (Glucosamine-6-phosphate synthase) (609 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLMU_ECOLI P0ACC7 Bifunctional protein glmU (UDP-N-acetylglucosamine pyrophosphorylase) (2.7.7.23) (N-acetylglucosamine-1-phosphate uridyltransferase) (Glucosamine-1-phosphate N-acetyltransferase) (2.3.1.157) (456 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.46, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +1 Query: 285 TLGHRVKIGTGCVIKN 300 TL HR+ CV KN Sbjct: 1231 TLRHRLATSAACVSKN 1278 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLNA_ECOLI P0A9C5 Glutamine synthetase (6.3.1.2) (Glutamate--ammonia ligase) (469 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.082 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.082, Method: Compositional matrix adjust. Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 8/72 (11%) Frame = +2 Query: 384 KNKIHPGEAMDKNLYDLPPEEAKEIPQ--VAGSLEEALNEL------DLDREFLKAGGVF 435 + I PG+ + LY++ PE PQ ++ S E L EL ++D E ++ Sbjct: 4379 RENIRPGDRIRGILYEIRPEARG--PQLFISRSRPEMLIELFRIEVPEIDEELIEIKAAI 4552 Query: 436 TDEAIDAYIALR 447 D A A IA++ Sbjct: 4553 RDPASRAKIAVK 4588 Score = 18.1 bits (35), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +1 Query: 401 PPEEAKEIPQ 410 PP+ + +IPQ Sbjct: 2812 PPKPSSDIPQ 2841 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLNB_ECOLI P0A9Z1 Nitrogen regulatory protein P-II 1 (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLND_ECOLI P27249 [Protein-PII] uridylyltransferase (PII uridylyl-transferase) (2.7.7.59) (Uridylyl-removing enzyme) (UTase) (890 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.46, Method: Compositional matrix adjust. Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 14/104 (13%) Frame = +2 Query: 68 IDQLLQRLWIEAGFSQIADLALVA------VGGYGRGELHPLSDVDLLILSRKKLPDDQ- 120 ID+ + +EA FS + +LA V + + + L L D +L+ L ++ Sbjct: 4964 IDEECATVLVEAEFSSLEELAYVPESELPEIDSFDKKRLQELRDRAQNVLTTLALKKEES 5143 Query: 121 ------AQKVGELLTLLWDVKLEVGH-SVRTLEECMLEGLSDLT 157 A + L +L D+ ++ V TLE+ +G+SDL Sbjct: 5144 FGDNKPADDLLNLASLDRDMAFKLAACGVCTLEDLAEQGVSDLA 5275 Score = 18.9 bits (37), Expect = 4.1, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -2 Query: 157 TVATNLIESRLLIG 170 + A N +SRLLIG Sbjct: 1377 SCAPNASQSRLLIG 1336 Score = 18.5 bits (36), Expect = 6.3, Method: Compositional matrix adjust. Identities = 17/57 (29%), Positives = 27/57 (47%) Frame = +1 Query: 18 GQPQNPCVWPRDELTVGGIKAHIDTFQRWLGDAFDNGISAEQLIEARTEFIDQLLQR 74 G PQ VW +TV G + D + L A + S ++LI+ +F D L++ Sbjct: 5320 GSPQYLLVWR*CVITVAGRNSMTDVTIKLL--AAEISTSVDRLIQ---QFADAGLKK 5475 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLNE_ECOLI P30870 Glutamate-ammonia-ligase adenylyltransferase (2.7.7.42) ([Glutamate--ammonia-ligase] adenylyltransferase) (Glutamine-synthetase adenylyltransferase) (ATase) (946 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 10/21 (47%) Frame = +2 Query: 46 VIAHPEWLTELESQPPQADEW 66 VIA EW L PP + W Sbjct: 6488 VIAIWEWRVNLLYAPPSSPSW 6550 Score = 20.0 bits (40), Expect = 2.3, Method: Compositional matrix adjust. Identities = 13/32 (40%), Positives = 17/32 (53%) Frame = -1 Query: 345 QSRSLLPTLSAIAELHLLSENDAEQLRVAYLF 376 Q +LLPTL A ++ DA R+ YLF Sbjct: 6949 QMGNLLPTLLAGYRAEIVLF*DALDQRLVYLF 6854 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLNH_ECOLI P0AEQ3 Glutamine-binding periplasmic protein (GlnBP) (Precursor) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLNK_ECOLI P0AC55 Nitrogen regulatory protein P-II 2 (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.86, Method: Composition-based stats. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 43 AELYRGAEYSV 53 AELYRG +V Sbjct: 1618 AELYRGKAKTV 1650 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLNP_ECOLI P0AEQ6 Glutamine transport system permease protein glnP (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = +1 Query: 130 SRWETIRY 137 RW+T+R+ Sbjct: 712 CRWQTVRH 735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLNQ_ECOLI P10346 Glutamine transport ATP-binding protein glnQ (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 19/31 (61%) Frame = +2 Query: 178 VMQDLAEEGMTMVIVTHEIGFAEKVASRLIF 208 ++DLAE+G++ + E+ ++ A +LI Sbjct: 5234 TLEDLAEQGVSDLADIEELD--DEKAGKLIM 5320 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 12/19 (63%) Frame = -2 Query: 14 TQVLHNIDLNIAQGEVVVI 32 T++LH N+A +++I Sbjct: 3093 TKLLHPASENVANSTLIII 3037 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLO2_ECOLI P0AC84 Hydroxyacylglutathione hydrolase (3.1.2.6) (Glyoxalase II) (Glx II) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 66 VEKFPQIV 73 ++ FPQIV Sbjct: 3662 IDSFPQIV 3639 Score = 16.2 bits (30), Expect = 8.1, Method: Compositional matrix adjust. Identities = 4/13 (30%), Positives = 7/13 (53%) Frame = +2 Query: 12 NYIWVLNDEAGRC 24 ++ W+L G C Sbjct: 6749 SWFWLLRPMMGSC 6787 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPA_ECOLI P0A9C0 Anaerobic glycerol-3-phosphate dehydrogenase subunit A (G-3-P dehydrogenase) (1.1.5.3) (542 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.7, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 12/24 (50%) Frame = +2 Query: 372 KLGNTRPCTTADLALPGSQEPAEV 395 KL CT DLA G + A++ Sbjct: 5210 KLAACGVCTLEDLAEQGVSDLADI 5281 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPB_ECOLI P13033 Anaerobic glycerol-3-phosphate dehydrogenase subunit B (Anaerobic G-3-P dehydrogenase subunit B) (Anaerobic G3Pdhase B) (1.1.5.3) (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 3/45 (6%) Frame = -3 Query: 285 KNGVVNEIWTRNHADIPLRP---RFAVLASGSFFSGGLVAERNGI 326 + +V +W + + +PL P RF + + G I Sbjct: 1238 RRVLVQ*VWVKRYRHVPLVPLGDRFCLCFEHYCYYCGFYLSLQSI 1104 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 8/16 (50%) Frame = +2 Query: 293 WTRNHADIPLRPRFAV 308 W R D+P R+ + Sbjct: 935 WNRADEDVPFAGRYQI 982 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 13/21 (61%) Frame = +2 Query: 157 ASLRELGLAVETAEIELPELD 177 +SL EL E+ ELPE+D Sbjct: 5006 SSLEELAYVPES---ELPEID 5059 Score = 16.9 bits (32), Expect = 8.3, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +2 Query: 164 LAVETAEIELPELD 177 + +E IE+PE+D Sbjct: 4481 MLIELFRIEVPEID 4522 Score = 16.5 bits (31), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -2 Query: 210 PVANTCEMILMPACFG 225 P +TC + +P C G Sbjct: 711 PCCDTCAIS*VPCCNG 664 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPC_ECOLI P0A996 Anaerobic glycerol-3-phosphate dehydrogenase subunit C (G-3-P dehydrogenase) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.52, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 142 FGTFRRW 148 F TFRRW Sbjct: 4004 FETFRRW 4024 Score = 16.9 bits (32), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = -2 Query: 150 RSVAAQQAQYKDQVAFFHG 168 R + AQQ + F+H Sbjct: 162 RIITAQQNKIITNAGFYHA 106 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPD_ECOLI P13035 Aerobic glycerol-3-phosphate dehydrogenase (1.1.5.3) (501 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.2, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 18/39 (46%) Frame = +2 Query: 462 RADDALWRRTKQGMWLNADQQSRVSQWLVEYTQQRLSLA 500 R D LW LNA + V+ +V+ + +++A Sbjct: 4679 RIDIVLWDDNPAQFVLNAMAPAEVASIVVDEDAKTMNIA 4795 Score = 18.1 bits (35), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +2 Query: 232 SHIVVPRVH 240 S ++VPRVH Sbjct: 1880 SSVIVPRVH 1906 Score = 17.7 bits (34), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 6/12 (50%) Frame = -1 Query: 407 PFLTESLARHYA 418 PFL L HY Sbjct: 4276 PFLFTKLLNHYC 4241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPE_ECOLI P0A6V5 Thiosulfate sulfurtransferase glpE (2.8.1.1) (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 9.2, Method: Composition-based stats. Identities = 7/23 (30%), Positives = 10/23 (43%) Frame = -3 Query: 20 EAVLVDIRDPQSFAMGHAVQAFH 42 + VL D+ + GH FH Sbjct: 4448 DLVLQDVSHTKYL*CGHQGVCFH 4380 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPF_ECOLI P0AER0 Glycerol uptake facilitator protein (Aquaglyceroporin) (281 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.010 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.8 bits (55), Expect = 0.010, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 16/26 (61%) Frame = -1 Query: 87 IPFIVSQVAGAFCAAALVYGLYYNLF 112 PF+ +++ +C+ + Y LY NLF Sbjct: 4279 FPFLFTKLLNHYCSFSFAYFLYNNLF 4202 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 197 LTGFAMNPARDFG 209 LT +NP D+G Sbjct: 1921 LTASPVNPRYDYG 1883 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 11/24 (45%), Positives = 12/24 (50%) Frame = -3 Query: 128 SVDLAGTFSTYPNPHINFVQAFAV 151 S LAG FST V AF+V Sbjct: 5759 SSALAGFFSTCSTCFACSVLAFSV 5688 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPG_ECOLI P09391 Rhomboid protease glpG (3.4.21.105) (Intramembrane serine protease) (276 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 12/21 (57%) Frame = -2 Query: 172 GKLIVITLISALLSGYVQQKF 192 LIVITL S LS ++ F Sbjct: 4902 SSLIVITLSSQPLS*ETKRTF 4840 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 10/21 (47%) Frame = -2 Query: 84 PFFAALRERAGPVTWVMMIAC 104 P+F R+ +TW M C Sbjct: 5583 PYFPLQRKFIWHLTWFMF*MC 5521 Score = 16.2 bits (30), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +3 Query: 91 ERAGPVTWVMM 101 +RAG V W ++ Sbjct: 5217 QRAGSVRWKIL 5249 Score = 16.2 bits (30), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 6/14 (42%) Frame = -3 Query: 71 AGHTGSGLHYRRYP 84 GH G H YP Sbjct: 4406 CGHQGVCFHEAAYP 4365 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +2 Query: 98 WVMMIACVV 106 WV+ ++CVV Sbjct: 6434 WVIKLSCVV 6460 Score = 16.2 bits (30), Expect = 8.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 88 ALRERAGPVTW 98 ALR + P+TW Sbjct: 621 ALR*ASSPLTW 589 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPK_ECOLI P0A6F3 Glycerol kinase (2.7.1.30) (ATP:glycerol 3-phosphotransferase) (Glycerokinase) (GK) (502 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 27 0.012 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 26.6 bits (57), Expect = 0.012, Method: Compositional matrix adjust. Identities = 11/37 (29%), Positives = 21/37 (56%) Frame = +1 Query: 380 ATLESIAYQTRDVLEAMQADSGIRLHALRVDGGAVAN 416 A ++ ++YQ DVL + D+G+ L +++ G N Sbjct: 2050 AQMKKLSYQVNDVLSKLFDDAGLILVDFKLEFGLFEN 2160 Score = 17.3 bits (33), Expect = 8.1, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 14/36 (38%) Frame = +1 Query: 464 KAVIEREFRPGIETTERNYRYAGWKKAVKRAMAWEE 499 K +ERE R IE + K A + W E Sbjct: 5902 KRSVEREVRRKIEEDAKRVAEEARKMAAENEGKWPE 6009 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPQ_ECOLI P09394 Glycerophosphoryl diester phosphodiesterase (Glycerophosphodiester phosphodiesterase) (3.1.4.46) (Precursor) (358 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -2 Query: 297 TGMVQDAQQNKLVVH 311 T + AQQNK++ + Sbjct: 168 TCRIITAQQNKIITN 124 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPR_ECOLI P0ACL0 Glycerol-3-phosphate regulon repressor (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.56, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +1 Query: 233 PPPVSVMQVLTDHHI 247 P P++ LTD+H+ Sbjct: 6004 PEPIAEQIELTDYHV 6048 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPT_ECOLI P08194 Glycerol-3-phosphate transporter (G-3-P transporter) (G-3-P permease) (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLPX_ECOLI P0A9C9 Fructose-1,6-bisphosphatase class 2 (FBPase class 2) (3.1.3.11) (D-fructose-1,6-bisphosphate 1-phosphohydrolase class 2) (336 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +1 Query: 256 CKAMGIEAGKVLRL 269 CK +G+ + LRL Sbjct: 361 CKRLGLITAETLRL 402 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLRX1_ECOLI P68688 Glutaredoxin-1 (Grx1) (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.86, Method: Composition-based stats. Identities = 12/37 (32%), Positives = 14/37 (37%) Frame = +1 Query: 23 KLSNERDDFQYQYVDIRAEGITKEDLQQKAGKPVETV 59 KLS + D + R LQQ KPV V Sbjct: 6160 KLSESKADREEARAVGRKSKRKPSTLQQSFNKPVAVV 6270 Score = 16.5 bits (31), Expect = 1.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -3 Query: 6 FGRSGCPYC 14 F + GCP C Sbjct: 3818 FLKVGCPVC 3792 Score = 16.2 bits (30), Expect = 2.2, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +1 Query: 67 QHIGGY 72 QHIG Y Sbjct: 6634 QHIGAY 6651 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLRX2_ECOLI P0AC59 Glutaredoxin-2 (Grx2) (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLRX3_ECOLI P0AC62 Glutaredoxin-3 (Grx3) (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 3.7, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 73 DARGGLDPLLK 83 DAR DP L+ Sbjct: 6457 DAR*LYDPFLQ 6425 Score = 13.9 bits (24), Expect = 9.7, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 5/8 (62%) Frame = +3 Query: 7 YTKETCPY 14 YT+ C Y Sbjct: 6690 YTRACCVY 6713 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLRX4_ECOLI P0AC69 Glutaredoxin-4 (Grx4) (Monothiol glutaredoxin) (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.50, Method: Composition-based stats. Identities = 5/15 (33%), Positives = 11/15 (73%) Frame = -1 Query: 11 QIAENPILLYMKGSP 25 + ++P+L+Y G+P Sbjct: 1726 EYVDHPLLMYRYGTP 1682 Score = 15.4 bits (28), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +2 Query: 40 LAACG 44 LAACG Sbjct: 5213 LAACG 5227 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLSA1_ECOLI P77454 Glutaminase 1 (3.5.1.2) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLSA2_ECOLI P0A6W0 Glutaminase 2 (3.5.1.2) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 14/57 (24%), Positives = 24/57 (42%) Frame = -3 Query: 110 IPRNPFINAGALVVCDMLQGRLSAPRQRMLEVVRGLSGVSDISYDTVVARSEFEHSA 166 +PR + A L VC + A ++ V+ GLS V ++ +V H + Sbjct: 761 VPRVELV-AECLTVCQRHLAVILAQYRKFHAVMAGLSPVMH*AFLALVH*DRLHHRS 594 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 14/28 (50%) Frame = -3 Query: 180 NFHHDVTTVLQNYFHYCALKMSCVELAR 207 +F H +++QNY L++ C R Sbjct: 4844 HFDHCAQSLVQNYL----LQLLCSSFLR 4773 Score = 16.2 bits (30), Expect = 8.5, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +2 Query: 10 LENILRQVRPLIGQGK 25 L ++ VRP + QGK Sbjct: 6572 LHCLIAFVRPKLRQGK 6619 Score = 16.2 bits (30), Expect = 9.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +2 Query: 185 VTTVLQN 191 +TTV+QN Sbjct: 851 ITTVMQN 871 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTB_ECOLI P09831 Glutamate synthase [NADPH] large chain (1.4.1.13) (Glutamate synthase subunit alpha) (GLTS alpha chain) (NADPH-GOGAT) (Precursor) (1517 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.27, Method: Composition-based stats. Identities = 9/21 (42%), Positives = 14/21 (66%) Frame = -3 Query: 541 FAQVTNPPIDPLREAHVMSLA 561 F V NP I PL++A +++A Sbjct: 1049 FLVVVNPVISPLKQADFLAVA 987 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTD_ECOLI P09832 Glutamate synthase [NADPH] small chain (1.4.1.13) (Glutamate synthase subunit beta) (GLTS beta chain) (NADPH-GOGAT) (472 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTF_ECOLI P28721 Protein gltF (Precursor) (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.075 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.075, Method: Compositional matrix adjust. Identities = 13/30 (43%), Positives = 18/30 (60%) Frame = +1 Query: 29 TDTELTIIGEYTPGACTPVVTGGGIVDYGK 58 +D ++ + GE A PVVT G VD+GK Sbjct: 6487 SDRDMGVAGESALRA--PVVTIMGHVDHGK 6570 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 12/21 (57%) Frame = -1 Query: 227 AAVNDNTILGSDETIKLDGNV 247 +AVN+ DET KL G V Sbjct: 3628 SAVNNRRSRPGDETSKL*GQV 3566 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTI_ECOLI P37902 Glutamate/aspartate periplasmic-binding protein (Precursor) (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTJ_ECOLI P0AER3 Glutamate/aspartate transport system permease protein gltJ (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.083 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.083, Method: Compositional matrix adjust. Identities = 19/75 (25%), Positives = 30/75 (40%) Frame = -3 Query: 64 LGTLYVELFRNVPLIVQFFTWYLVIPELLPEKIGMWFKAELDPNIQFFLSSMLCLGLFTA 123 +G+ F+N F TW+ VIP F +E ++ S + LFT Sbjct: 1997 MGSCS*SFFKNSSNNG*FSTWFSVIPNR--------FTSEPAVRLRMTHSIGIISNLFTN 1842 Query: 124 ARVCEQVRAAIQSLP 138 A + E R+ +P Sbjct: 1841 ASLSESSRSICVGIP 1797 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTK_ECOLI P0AER5 Glutamate/aspartate transport system permease protein gltK (224 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 74 WFYLIVPG 81 W+Y VPG Sbjct: 756 WYY*RVPG 779 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTL_ECOLI P0AAG3 Glutamate/aspartate transport ATP-binding protein gltL (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.92, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 12/16 (75%) Frame = -1 Query: 123 RVGLSAHANKFPAQLS 138 R+ LSA+ + FP+ ++ Sbjct: 3787 RILLSANTSSFPSTVT 3740 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -1 Query: 5 KNVSKWYGHF 14 +N + W+ HF Sbjct: 4066 RNFTCWHNHF 4037 Score = 15.8 bits (29), Expect = 8.6, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = +3 Query: 8 SKWYGHFQ 15 ++WYG+ Q Sbjct: 6366 TRWYGNNQ 6389 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTP_ECOLI P21345 Proton glutamate symport protein (Glutamate-aspartate carrier protein) (437 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLTS_ECOLI P0AER8 Sodium/glutamate symport carrier protein (Glutamate permease) (401 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.62, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 10/20 (50%) Frame = +1 Query: 366 PSHMAFLVVPMVGAFFIDIV 385 P H AF + GA DIV Sbjct: 6694 PGHAAFTSMRARGAQATDIV 6753 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLUQ_ECOLI P27305 Glutamyl-Q tRNA(Asp) synthetase (Glu-Q-RSs) (6.1.1.-) (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +1 Query: 77 WQSQRHDAYREAL 89 WQ+ RH A L Sbjct: 718 WQTVRHSATNSTL 756 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +2 Query: 39 RWLVRIEDIDPPREV 53 RW V E + P RE+ Sbjct: 4019 RWKVVSEVVMPTREI 4063 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLVG_ECOLI P31450 Putative 6-phospho-alpha-glucosidase (3.2.1.122) (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLXK1_ECOLI P77364 Glycerate kinase 1 (2.7.1.31) (381 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLXK2_ECOLI P23524 Glycerate kinase 2 (2.7.1.31) (381 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLXR_ECOLI P77161 2-hydroxy-3-oxopropionate reductase (1.1.1.60) (Tartronate semialdehyde reductase) (TSAR) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 16/33 (48%) Frame = +3 Query: 203 ALMGGFASSRILEVHGERMIKRTFNPGFKIALH 235 L+ +A LEV R + + P + +A+H Sbjct: 4374 CLVKTYALVTALEVFCMRYVLKHEVPNYLLAVH 4472 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +2 Query: 108 NELGGDYLD 116 NELGG+ +D Sbjct: 4661 NELGGERID 4687 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GLYA_ECOLI P0A825 Serine hydroxymethyltransferase (Serine methylase) (SHMT) (2.1.2.1) (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.84 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.84, Method: Compositional matrix adjust. Identities = 8/34 (23%), Positives = 18/34 (52%) Frame = +1 Query: 166 KPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFV 199 K M +GG + + V+D + +A+ +G + + Sbjct: 6352 KTMMKLGGMATINQVIDQETAQLVAEEMGHKVIL 6453 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GM4D_ECOLI P0AC88 GDP-mannose 4,6-dehydratase (4.2.1.47) (GDP-D-mannose dehydratase) (373 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 9/16 (56%) Frame = -1 Query: 215 CLYLGNMDSLRDWGHA 230 C+++ N S W H+ Sbjct: 4777 CVFVNNDRSYLSWRHS 4730 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GMHA_ECOLI P63224 Phosphoheptose isomerase (5.3.1.-) (Sedoheptulose 7-phosphate isomerase) (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 20/96 (20%), Positives = 31/96 (32%) Frame = +2 Query: 67 TGRYRENRPGYPAIAISDVSHISCVGNDFGFNDIFSRYVEAVGREGDVLLGISTSGNSAN 126 T +Y +++PG P + I N VEAV E + Sbjct: 3773 TKQYPQSKPGTPLLKI*--------TRQLRMNKEILAVVEAVSNEKSL------------ 3892 Query: 127 VIKAIAAAREKGMKVITLTGKDGGKMAGTADIEIRV 162 REK + + + K +IE+RV Sbjct: 3893 -------PREKIFEALEIALATATKKKHEQEIEVRV 3979 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GMHB_ECOLI P63228 D,D-heptose 1,7-bisphosphate phosphatase (3.1.3.-) (D-glycero-D-manno-heptose 1,7-bisphosphate phosphatase) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.70, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +1 Query: 58 IARGKFTEA 66 +A GKFTEA Sbjct: 256 VAEGKFTEA 282 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GMR_ECOLI P77334 Protein gmr (661 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -1 Query: 343 LPFRIGLIEVYTSCSV 358 +PFRIG + T + Sbjct: 1465 MPFRIGELHATTVAKI 1418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNSA_ECOLI P0AC92 Protein gnsA (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNSB_ECOLI P77695 Protein gnsB (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNTK_ECOLI P46859 Thermoresistant gluconokinase (2.7.1.12) (Gluconate kinase 2) (175 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNTP_ECOLI P0AC94 High-affinity gluconate transporter (Gluconate permease 3) (Gnt-III system) (447 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +2 Query: 368 ISAAILDPATGQLVGV 383 I AAI DPA+ + V Sbjct: 4538 IKAAIRDPASRAKIAV 4585 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNTR_ECOLI P0ACP5 HTH-type transcriptional regulator gntR (Gluconate utilization system GNT-I transcriptional repressor) (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 16/33 (48%) Frame = +1 Query: 231 RQARREYPQLDGVFCTNDDLAVGAAFECQRLGL 263 R R P +F + +AV + C+RLGL Sbjct: 286 RLNERLMPLHKELFIEANPIAV--KWACKRLGL 378 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNTT_ECOLI P39835 High-affinity gluconate transporter (Gluconate permease) (Gnt-I system) (438 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNTU_ECOLI P0AC96 Low-affinity gluconate transporter (Gluconate permease) (Gnt-I system) (446 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.93, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 15/22 (68%) Frame = +2 Query: 190 MIIAGPLWGNFISRYVELHIPD 211 M+ + P W N+ +RY+E+ + D Sbjct: 2912 MLSSIPRW*NW*TRYLEVVVLD 2977 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GNTX_ECOLI P46846 Protein gntX (227 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.67, Method: Compositional matrix adjust. Identities = 15/52 (28%), Positives = 25/52 (48%) Frame = +2 Query: 156 RTRATATQHFLSARLRKRNLKNAFRLELPVQGRHMVIVDDVVTTGSTVAEIA 207 R A Q F+S R R L FR+E+P ++ + + ++ A+IA Sbjct: 4430 RPEARGPQLFIS-RSRPEMLIELFRIEVPEIDEELIEIKAAIRDPASRAKIA 4582 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/37 (27%), Positives = 16/37 (43%) Frame = +2 Query: 42 LPATHSHLPCGRCLQKPPPWQRLVTVADYAPPLSPLI 78 LP H + Q+ ++L D PP+ PL+ Sbjct: 662 LPLQHGTYDIAQVSQQGAVGKQL----DIRPPIQPLV 760 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 9/20 (45%) Frame = -1 Query: 147 CQWDSEAVTRTRATATQHFL 166 Q S AVTR QH L Sbjct: 4423 IQNTSNAVTRAYVFTRQHIL 4364 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GPDA_ECOLI P0A6S7 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (1.1.1.94) (NAD(P)H-dependent glycerol-3-phosphate dehydrogenase) (339 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GPH_ECOLI P32662 Phosphoglycolate phosphatase (PGPase) (PGP) (3.1.3.18) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GPMA_ECOLI P62707 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase (Phosphoglyceromutase) (PGAM) (BPG-dependent PGAM) (dPGM) (5.4.2.1) (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.0, Method: Compositional matrix adjust. Identities = 11/47 (23%), Positives = 21/47 (44%) Frame = -3 Query: 173 MKSGERVIIAAHGNSLRALVKYLDNMSEEEILELNIPTGVPLVYEFD 219 + +G R+ HG L A + N ++++N G+ +FD Sbjct: 3578 VGTGNRLFNI*HGTHLVANICTHINGDAIAVIDINTQCGLAPWNKFD 3438 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 225 LKRYYLG 231 L+RYYLG Sbjct: 4349 LRRYYLG 4329 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GPMB_ECOLI P0A7A2 Probable phosphoglycerate mutase gpmB (5.4.2.1) (Phosphoglyceromutase) (PGAM) (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.14, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 13/17 (76%) Frame = +2 Query: 197 ETAGDISHLDAPALDEL 213 + +GD ++L+APAL L Sbjct: 590 QVSGDEAYLNAPALKRL 640 Score = 20.8 bits (42), Expect = 0.27, Method: Compositional matrix adjust. Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 2/29 (6%) Frame = -1 Query: 62 TAEIIAQACGCD--IIFDSRLRELNMGVL 88 T I A G + IIFDSRL+++ L Sbjct: 1624 TRLIFASQYGSNSVIIFDSRLKKITAFFL 1538 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 12/58 (20%), Positives = 21/58 (36%) Frame = -1 Query: 103 WRRQLVNGTVDGRIPEGESMQELSDRVNAALESCRDLPQGSRPLLVSHGIALGCLVST 160 WR + N IP+ + V +L +C P + + ++ C ST Sbjct: 4741 WRHSVKNELSRIIIPQNDINTFSPQLVRHSLNTCSPHPNTCPYRIDTLVVSFNCDFST 4568 Score = 15.8 bits (29), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 10/23 (43%) Frame = +3 Query: 50 HIISSDLGRTRRTAEIIAQACGC 72 H++ S L T + + GC Sbjct: 4566 HVLKSQLKLTTSVSIL*GHVLGC 4634 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GPMI_ECOLI P37689 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (Phosphoglyceromutase) (BPG-independent PGAM) (iPGM) (5.4.2.1) (514 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 13/19 (68%) Frame = +2 Query: 278 DFDGFARKKVVNVDFVMLT 296 DF+ F R KVV+ + VM T Sbjct: 4001 DFETFRRWKVVS-EVVMPT 4054 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GPPA_ECOLI P25552 Guanosine-5'-triphosphate,3'-diphosphate pyrophosphatase (3.6.1.40) (Guanosine pentaphosphate phosphohydrolase) (pppGpp-5'-phosphohydrolase) (494 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GRCA_ECOLI P68066 Autonomous glycyl radical cofactor (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.2, Method: Compositional matrix adjust. Identities = 11/52 (21%), Positives = 28/52 (53%), Gaps = 2/52 (3%) Frame = +1 Query: 74 NVNVLRRETLEDAVKHPEKYPQLTIRVSGYAVRFNSLTPEQQ--RDVIARTF 123 ++ ++ ++ +EDA+K L + +GY + ++ ++ DV++R F Sbjct: 412 SLTLVNQKRVEDALKSAGLLS*LLGKYNGYITKISNDKDNKRFVADVVSRLF 567 Score = 15.0 bits (27), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 15 LLNSFWL 21 LLNS W+ Sbjct: 2631 LLNSVWI 2651 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GREA_ECOLI P0A6W5 Transcription elongation factor greA (Transcript cleavage factor greA) (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GREB_ECOLI P30128 Transcription elongation factor greB (Transcript cleavage factor greB) (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 139 VNTPAGEASW 148 +NT G A W Sbjct: 3479 INTQCGLAPW 3450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GRPE_ECOLI P09372 Protein grpE (HSP-70 cofactor) (Heat shock protein B25.3) (HSP24) (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.5, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 13/20 (65%) Frame = +2 Query: 176 KGYTLNGRTIRAAMVTVAKA 195 KG+TLN + A+V V +A Sbjct: 1457 KGHTLNQQQ-NDALVAVLRA 1513 Score = 15.4 bits (28), Expect = 9.1, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 77 ELDIEKAHKFAL 88 ELD EKA K + Sbjct: 5285 ELDDEKAGKLIM 5320 Score = 15.4 bits (28), Expect = 9.5, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 14/20 (70%), Gaps = 1/20 (5%) Frame = +2 Query: 80 IEKAHKFALEKFI-NELLPV 98 +EK +++ L KF+ NEL + Sbjct: 5609 VEKVNRYKL-KFVENELTSI 5665 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSA_ECOLI P23893 Glutamate-1-semialdehyde 2,1-aminomutase (GSA) (5.4.3.8) (Glutamate-1-semialdehyde aminotransferase) (GSA-AT) (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.14, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = -3 Query: 293 YQAGTLSGNPI 303 YQ TLSGNP+ Sbjct: 797 YQQWTLSGNPL 765 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSH1_ECOLI P0A6W9 Glutamate--cysteine ligase (6.3.2.2) (Gamma-glutamylcysteine synthetase) (Gamma-ECS) (GCS) (518 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 17/30 (56%) Frame = -2 Query: 427 EAYQKVCDELVACFDNPDLTFSARILRSMI 456 + Y +C + +C+ L+ + +ILR+ I Sbjct: 5406 QLYGYICHAVPSCYSYYALSPNQQILRAAI 5317 Score = 16.9 bits (32), Expect = 9.3, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -1 Query: 320 LRGGIEYIEVRSLDINPFSP 339 ++ + I + DIN FSP Sbjct: 4729 VKNELSRIIIPQNDINTFSP 4670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSHB_ECOLI P04425 Glutathione synthetase (6.3.2.3) (Glutathione synthase) (GSH synthetase) (GSH-S) (GSHase) (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 7/39 (17%) Frame = +3 Query: 206 DGDKRVLVVDGEPVPYCLARIPQGGET-------RGNLA 237 DG+ ++ VDG+ + L+ I + RGNL Sbjct: 3723 DGEMIIVTVDGKDEVFALSNIRKANRAPHF*KFRRGNLG 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSHR_ECOLI P06715 Glutathione reductase (GRase) (GR) (1.8.1.7) (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 325 LFNNKPDEHLDYSNI 339 LF+NKP+ L + I Sbjct: 2162 LFSNKPNSSLKSTRI 2118 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSIA_ECOLI P75796 Glutathione import ATP-binding protein gsiA (3.6.3.-) (623 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSIB_ECOLI P75797 Glutathione-binding protein gsiB (Precursor) (512 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 417 DWALSPLF 424 DWA+ P F Sbjct: 3319 DWAIRPFF 3342 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSIC_ECOLI P75798 Glutathione transport system permease protein gsiC (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.98, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +3 Query: 256 PGLGRLLVDSVEMRDY 271 PGL RLL + + DY Sbjct: 3597 PGLERLLFTAEDYTDY 3644 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSID_ECOLI P75799 Glutathione transport system permease protein gsiD (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPA_ECOLI P45756 Probable general secretion pathway protein A (489 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPC_ECOLI P45757 Probable general secretion pathway protein C (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%) Frame = -3 Query: 147 HYEKVTLHPGLPDIIKQ 163 HY + + + GLP +I + Sbjct: 5354 HYRQTSRYCGLP*LIYR 5304 Score = 16.2 bits (30), Expect = 8.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -1 Query: 7 PFHLANHNK 15 PF NHN+ Sbjct: 37 PFRAINHNR 11 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPD_ECOLI P45758 Probable general secretion pathway protein D (Precursor) (650 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 13/19 (68%) Frame = +2 Query: 50 KTILIDPSVQGTISVRSND 68 K + DP+ + I+V++ND Sbjct: 4541 KAAIRDPASRAKIAVKTND 4597 Score = 18.9 bits (37), Expect = 3.1, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 3/23 (13%) Frame = -1 Query: 415 YNGMAAGFFNG---DWGVLLTAL 434 YN ++ FFNG ++ L T L Sbjct: 4324 YNALSTDFFNGSCNNFPFLFTKL 4256 Score = 18.1 bits (35), Expect = 5.2, Method: Compositional matrix adjust. Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 3/46 (6%) Frame = +2 Query: 162 SNVLILTGRASTINKLIEVIKRVDVIGTEKQ---QIIHLEYASAED 204 SN+ I + +NKLIE + ++ Q +I LE +A D Sbjct: 1061 SNIEIQHYNRAMLNKLIEGLDKIRSNSNNAQNTDKIGRLEVQAARD 1198 Score = 18.1 bits (35), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +3 Query: 398 KNGGITSANPAW 409 +NGG S+NP + Sbjct: 30 RNGGEISSNPQY 65 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPE_ECOLI P45759 Probable general secretion pathway protein E (Type II traffic warden ATPase) (493 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 14/27 (51%) Frame = -1 Query: 347 SASGAVTRLRDMGVESFLLSSSLAGII 373 + S AVTR + LLS+ G+I Sbjct: 4417 NTSNAVTRAYVFTRQHILLSNYSFGVI 4337 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPF_ECOLI P41441 Putative general secretion pathway protein F (Protein transport protein hofF) (398 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPG_ECOLI P41442 Putative general secretion pathway protein G (Protein transport protein hofG) (Precursor) (145 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.006 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.4 bits (54), Expect = 0.006, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 15/27 (55%) Frame = +2 Query: 109 LVNPGEHGAYDLLSAGPDGEMGTEDDI 135 ++ P +HG YD+ G +G + DI Sbjct: 656 IILPLQHGTYDIAQVSQQGAVGKQLDI 736 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPH_ECOLI P41443 Putative general secretion pathway protein H (Protein transport protein hofH) (Precursor) (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 133 TPFSLLMANAGTG 145 +PF + A GTG Sbjct: 6940 SPFVHVSAKKGTG 6978 Score = 15.8 bits (29), Expect = 5.5, Method: Compositional matrix adjust. Identities = 5/28 (17%), Positives = 12/28 (42%) Frame = +1 Query: 72 SAWRIMVPGKTPSAWRWVPLQEDAADES 99 +AW + + RW ++ A + + Sbjct: 670 TAWNLRYCASITARCRWQTVRHSATNST 753 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPI_ECOLI P45760 Probable general secretion pathway protein I (Precursor) (125 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -1 Query: 79 NWRSDIHSSKDGTLL 93 NW ++ +GTLL Sbjct: 748 NWWPNV*LFANGTLL 704 Score = 15.0 bits (27), Expect = 7.6, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +1 Query: 80 WRSDIHSSKDGTL 92 W++ HS+ + TL Sbjct: 718 WQTVRHSATNSTL 756 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPJ_ECOLI P45761 Probable general secretion pathway protein J (Precursor) (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 2 INRQQGFTL 10 INR GF+L Sbjct: 4942 INRCTGFSL 4916 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 18/36 (50%) Frame = +2 Query: 41 SQKEIQQFNQLQRTITILDNDLLQLVARRNRSTDKI 76 S EIQ +N+ I D ++ + ++TDKI Sbjct: 1061 SNIEIQHYNRAMLNKLIEGLDKIRSNSNNAQNTDKI 1168 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPK_ECOLI P45762 Probable general secretion pathway protein K (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +2 Query: 271 VKPLVAQVKR 280 VKPL VKR Sbjct: 2015 VKPLAGLVKR 2044 Score = 16.9 bits (32), Expect = 5.9, Method: Compositional matrix adjust. Identities = 14/37 (37%), Positives = 16/37 (43%), Gaps = 3/37 (8%) Frame = +1 Query: 90 GNTVKWQLRDAQHCFNLNALAK---ISDDPLASPDFP 123 GN Q R + NL+ AK IS P S D P Sbjct: 2728 GNMSSKQHRQSSEWENLSQPAKDEKISAPPKPSSDIP 2838 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 15/32 (46%) Frame = -3 Query: 166 SFYQSQTPPRHSANQMLFLTGELRQIKGITEN 197 SF+ + PR+S L++ G+T + Sbjct: 3320 SFFSNNKKPRNSGFDTTGPYSPLKESLGMTSD 3225 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPL_ECOLI P45763 Probable general secretion pathway protein L (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSPM_ECOLI P36678 Putative general secretion pathway protein M (Transport protein pshM) (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.57 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.57, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 24 SLGVFCWL 31 S GVFC+L Sbjct: 3287 SFGVFCYL 3310 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 12/43 (27%), Positives = 23/43 (53%) Frame = +2 Query: 74 TQPIKNILLEEAKRENLAITLENGPDNTLTIHPVTAPLENVSR 116 TQ K +++++ + A+ +E + I VTA ++ VSR Sbjct: 4190 TQTAKQVIVQKVREAERAVVIEQFREQEGKI--VTATVKKVSR 4312 Score = 17.3 bits (33), Expect = 1.8, Method: Compositional matrix adjust. Identities = 13/53 (24%), Positives = 17/53 (32%), Gaps = 18/53 (33%) Frame = -3 Query: 19 ALAVLSLGVFCWLGVIKPIDTY------------------IAEHQSHAQKIKK 53 A+AV+ + C L D Y Q+H Q IKK Sbjct: 3497 AIAVIDINTQCGLAPWNKFDPY*FVSQGFYRC*NYLC*FLFQRGQTHPQGIKK 3339 Score = 16.2 bits (30), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 100 NTLTIH 105 NTLTIH Sbjct: 1725 NTLTIH 1708 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GSP_ECOLI P0AES0 Bifunctional glutathionylspermidine synthetase/amidase (Glutathionylspermidine synthase) (6.3.1.8) (Glutathione:spermidine ligase [ADP-forming]) (GSP synthetase) (Glutathionylspermidine amidase) (3.5.1.78) (Glutathionylspermidine amidohydrolase [spermidine-forming]) (GSP amidase) (619 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.0, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 7/36 (19%) Frame = -3 Query: 469 PQNEVRLIDVLLRPEV-------LVFEPLWTVIPGN 497 P +++ L+++ R V L EP+W+V G+ Sbjct: 5204 PYHDLNLLNLTSRQRVCYHQNFLLFLEPMWSVHSGH 5097 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GST_ECOLI P0A9D2 Glutathione S-transferase (2.5.1.18) (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.47, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 138 EALKDEHWICG 148 EA EH++CG Sbjct: 2458 EAHNKEHFLCG 2490 Score = 19.2 bits (38), Expect = 0.59, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = +2 Query: 84 APVNSISRYKTIEWLNYIATEL 105 APV ++RYK L ++ EL Sbjct: 5603 APVEKVNRYK----LKFVENEL 5656 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +2 Query: 149 QRFTIADAYLFTVLRWAY 166 R I AYL+ LRW + Sbjct: 3449 SRAPIHTAYLYR*LRWRH 3502 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GTRA_ECOLI P77682 Bactoprenol-linked glucose translocase homolog from prophage CPS-53 (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.0, Method: Composition-based stats. Identities = 9/24 (37%), Positives = 10/24 (41%) Frame = -3 Query: 90 LPPMITLVTFSAISLVCGFVYSKF 113 LPP + L CG V S F Sbjct: 4550 LPP*FRSTLRQFLVLQCGKVQSAF 4479 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GTRB_ECOLI P77293 Bactoprenol glucosyl transferase homolog from prophage CPS-53 (2.4.1.-) (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.68, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -3 Query: 82 HATGDAIIPIDVDLQ 96 H GDAI ID++ Q Sbjct: 3512 HINGDAIAVIDINTQ 3468 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 1/32 (3%) Frame = +2 Query: 149 IEENVGDFRLMSR-DVVENIKLMPERNLFMKG 179 I+ GDF R VV + +MP R + ++ Sbjct: 3983 IDRKTGDFETFRRWKVVSEV-VMPTREITLEA 4075 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUAA_ECOLI P04079 GMP synthase [glutamine-hydrolyzing] (6.3.5.2) (Glutamine amidotransferase) (GMP synthetase) (GMPS) (525 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 14/29 (48%) Frame = -3 Query: 271 EQVLDMFGDHFGLNIVHVPAEDRFLSALA 299 VL G FGL+I+ + +ALA Sbjct: 6899 SSVLRRSGSAFGLSILLITTTTGTFAALA 6813 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +3 Query: 396 DMLYRHPFPGPGLGVRV 412 D+LY HP P G R+ Sbjct: 1215 DLLYEHPTPSFGNVCRL 1265 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUAC_ECOLI P60560 GMP reductase (1.7.1.7) (Guanosine 5'-monophosphate oxidoreductase) (Guanosine monophosphate reductase) (347 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -1 Query: 117 LDLNPALNFV 126 +D+NP NF+ Sbjct: 3988 IDINPDFNFL 3959 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = -3 Query: 188 TRVKTGVGYPQLSAVIE 204 TRV +G ++SAVI Sbjct: 425 TRVSDVIGKRKVSAVIN 375 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUAD_ECOLI P76641 Guanine deaminase (Guanase) (Guanine aminase) (3.5.4.3) (Guanine aminohydrolase) (GAH) (439 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/10 (80%), Positives = 8/10 (80%) Frame = -1 Query: 398 LQQLRYDNSV 407 LQQL Y NSV Sbjct: 6268 LQQLAY*NSV 6239 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +2 Query: 306 GSGLFNLKKAWQK 318 G GLF + WQ+ Sbjct: 191 GKGLFQ*RPMWQQ 229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUDH_ECOLI P0AES2 Glucarate dehydratase (GDH) (GlucD) (4.2.1.40) (446 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 9/12 (75%) Frame = +3 Query: 435 WTFDNKRPCMVR 446 W ++NK+ ++R Sbjct: 1029 WVYNNKKKWLLR 1064 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUDP_ECOLI Q46916 Probable glucarate transporter (D-glucarate permease) (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 18/29 (62%) Frame = -2 Query: 3 SLSQAASSVEKRTNARYWIVVMLFIVTSF 31 S+ QAA+++ +T +++FI+T F Sbjct: 573 SVEQAANNISHKT-------LIIFIITDF 508 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUDX_ECOLI Q46915 Glucarate dehydratase-related protein (GDH-RP) (GlucDRP) (4.2.1.-) (446 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.39, Method: Compositional matrix adjust. Identities = 14/72 (19%), Positives = 29/72 (40%) Frame = +3 Query: 133 ELLGPGKQREAITVLGYLFYIGDRTKTDLPYVENTPGNHEWYQLRHQKAMNSEAVVRLAE 192 E+ PG +R T Y Y+G+R L +W + KA++ E ++ + Sbjct: 3585 EVSSPGLERLLFTAEDYTDYLGERINLTLRIA--MQNRRKWQGI--IKAVDGEMIIVTVD 3752 Query: 193 ASQDRYGFKDFK 204 + + + + Sbjct: 3753 GKDEVFALSNIR 3788 Score = 20.0 bits (40), Expect = 0.99, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -2 Query: 239 WLLDEAISLCK 249 W+L +A SLCK Sbjct: 2400 WILTKACSLCK 2368 Score = 17.7 bits (34), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +3 Query: 360 NPTAIDTHWI 369 NP AI W+ Sbjct: 1389 NPVAISCKWV 1418 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +1 Query: 382 LEIKNGKIAVPDAPG 396 +E +NG + D PG Sbjct: 6655 VETENGMVTFLDTPG 6699 Score = 16.9 bits (32), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +1 Query: 75 EVARLNKVVQQVHK 88 E RLN+ + +HK Sbjct: 277 EAGRLNERLMPLHK 318 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUN_ECOLI P37651 Endoglucanase (3.2.1.4) (Endo-1,4-beta-glucanase) (Cellulase) (Carboxymethylcellulase) (CMCase) (Precursor) (368 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 339 FGQGWDQHRFRFST 352 F ++ +RF FST Sbjct: 5649 FSTNFNLYRFTFST 5608 Score = 17.7 bits (34), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 176 WRFNPSYLPPT 186 WR N Y PP+ Sbjct: 6506 WRVNLLYAPPS 6538 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +2 Query: 230 WQLKAEKTL 238 WQLKA K+L Sbjct: 6326 WQLKALKSL 6352 Score = 16.5 bits (31), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -1 Query: 86 QGSLKERLPAWLW 98 Q L+ LPA LW Sbjct: 5434 QLKLRSLLPATLW 5396 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUTM_ECOLI P15081 Glucitol operon activator protein (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.6, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -2 Query: 102 HDPLSQNALSLAL 114 H P+ LSL L Sbjct: 4623 HAPIGSIRLSLVL 4585 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GUTQ_ECOLI P17115 Protein gutQ (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GYRA_ECOLI P0AES4 DNA gyrase subunit A (5.99.1.3) (875 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 11/18 (61%) Frame = +2 Query: 372 KARDRAHILEALAVALAN 389 K+ R I EAL +ALA Sbjct: 3884 KSLPREKIFEALEIALAT 3937 Score = 17.7 bits (34), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 595 SRGRVYS 601 SRGR+YS Sbjct: 3431 SRGRIYS 3451 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GYRB_ECOLI P0AES6 DNA gyrase subunit B (5.99.1.3) (804 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= GYRI_ECOLI P33012 DNA gyrase inhibitory protein (Protein sbmC) (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/36 (25%), Positives = 14/36 (38%) Frame = -2 Query: 22 WEQTVKKGFEQLMMWVDSKNIVPKEWVAVYYDNPDE 57 W+ TV + F +W+ W + DN D Sbjct: 6921 WQDTVLR*FCSKTLWI-------SVWFIYFVDNNDN 6835 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCAB_ECOLI P77646 3-phenylpropionate-dihydrodiol/cinnamic acid-dihydrodiol dehydrogenase (1.3.1.n1) (2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase) (Cis-3-(2-carboxyethyl)-3,5-cyclohexadiene-1,2-diol dehydrogenase) (PP-dihydrodiol dehydrogenase) (Cis-3-(2-carboxyethenyl)-3,5-cyclohexadiene-1,2-diol dehydrogenase) (CI-dihydrodiol dehydrogenase) (270 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +3 Query: 87 NAGIWDHNASLVNTP 101 N D SLV+TP Sbjct: 2361 NCACTDCRLSLVSTP 2405 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCAC_ECOLI P0ABW0 3-phenylpropionate/cinnamic acid dioxygenase ferredoxin subunit (Digoxigenin ferredoxin subunit) (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.76, Method: Composition-based stats. Identities = 10/24 (41%), Positives = 13/24 (54%) Frame = -3 Query: 59 TVECPLHAASFCLKTGKALCLPAT 82 + E + AAS + T L LPAT Sbjct: 5435 STEVEISAASNFMVTSVMLFLPAT 5364 Score = 15.8 bits (29), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +3 Query: 75 KALCLPATDPLTT 87 K L T+PLTT Sbjct: 5133 KKKVLVITNPLTT 5171 Score = 15.8 bits (29), Expect = 3.4, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 22 TSPVIALFNVG 32 + P I LFN+ Sbjct: 1122 SKPSINLFNIA 1090 Score = 15.8 bits (29), Expect = 3.7, Method: Composition-based stats. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = -3 Query: 28 LFNVGGEFYAINDRCSHGNA 47 LFN+ + + + C+H N Sbjct: 3560 LFNI*HGTHLVANICTHING 3501 Score = 15.4 bits (28), Expect = 4.0, Method: Composition-based stats. Identities = 6/26 (23%), Positives = 12/26 (46%) Frame = -2 Query: 19 RIDTSPVIALFNVGGEFYAINDRCSH 44 R+ P+I N + ++ C+H Sbjct: 6795 RLWHDPIIGRNNQNHDICCLSTSCTH 6718 Score = 14.6 bits (26), Expect = 6.8, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -2 Query: 19 RIDTSPVIALFNV 31 RID S FN+ Sbjct: 5667 RIDVSSFSTNFNL 5629 Score = 14.6 bits (26), Expect = 7.0, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 5/9 (55%) Frame = -1 Query: 63 PLHAASFCL 71 P H FC+ Sbjct: 3706 PCHLRRFCI 3680 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCAD_ECOLI P77650 3-phenylpropionate/cinnamic acid dioxygenase ferredoxin--NAD(+) reductase component (1.18.1.3) (Digoxigenin system ferredoxin--NAD(+) reductase component) (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCAE_ECOLI P0ABR5 3-phenylpropionate/cinnamic acid dioxygenase subunit alpha (1.14.12.19) (Digoxigenin subunit alpha) (453 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 11/25 (44%), Gaps = 10/25 (40%) Frame = -1 Query: 193 KWVINCN----------WKFPAEQF 207 +WV NC W F AE+F Sbjct: 4564 RWVTNCRLNFDQLFVNFWYFNAEKF 4490 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCAF_ECOLI Q47140 3-phenylpropionate/cinnamic acid dioxygenase subunit beta (1.14.12.19) (Digoxigenin subunit beta) (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.32, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 12/18 (66%) Frame = +2 Query: 101 NCQISETDIPNVFAVRVN 118 +CQ S +IP++F ++ Sbjct: 6914 SCQKSGEEIPHLFTYQLK 6967 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCAR_ECOLI Q47141 Hca operon transcriptional activator (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCAT_ECOLI Q47142 Probable 3-phenylpropionic acid transporter (379 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 176 IRPTIQP 182 IRP IQP Sbjct: 734 IRPPIQP 754 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +2 Query: 350 YQYLGHGVFWVM 361 YQ++ FW+M Sbjct: 3008 YQFIEIACFWMM 3043 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = +2 Query: 267 RDMLLISAICGV 278 RDM A CGV Sbjct: 5195 RDMAFKLAACGV 5230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCHA_ECOLI P31658 Chaperone protein hchA (Hsp31) (EcHsp31) (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +1 Query: 253 KDRKLLTGDSP 263 K + +TGD+P Sbjct: 631 KKAQCITGDNP 663 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCP_ECOLI P75825 Hydroxylamine reductase (1.7.-.-) (Hybrid-cluster protein) (HCP) (550 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +3 Query: 226 YGHPTPTQVNV 236 Y HPTP+ NV Sbjct: 1224 YEHPTPSFGNV 1256 Score = 16.9 bits (32), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 328 DRIWTRSIVG 337 DR+W I+G Sbjct: 6798 DRLWHDPIIG 6769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HCR_ECOLI P75824 NADH oxidoreductase hcr (1.-.-.-) (322 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HDA_ECOLI P69931 DnaA-homolog protein hda (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 7/15 (46%) Frame = +1 Query: 140 LESGKTRLLITGDRP 154 S K ITGD P Sbjct: 619 CTSAKKAQCITGDNP 663 Score = 16.5 bits (31), Expect = 5.0, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 1/33 (3%) Frame = -1 Query: 13 EVSLNTPAQLSLPLYLPDDETFASFW-PGDNSS 44 +S TP+QLS+ + D W PG NS+ Sbjct: 3514 HISTVTPSQLSI*IRSVD-------WRPGINST 3437 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HDEA_ECOLI P0AES9 Chaperone-like protein hdeA (10K-S protein) (Precursor) (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HDEB_ECOLI P0AET2 Protein hdeB (10K-L protein) (Precursor) (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = -3 Query: 18 ALSLVNAQSALA 29 ALSL SALA Sbjct: 5780 ALSLFACSSALA 5745 Score = 15.8 bits (29), Expect = 3.0, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = -2 Query: 80 IPKVIEYCKKNPQKNLY 96 + K CK+N NL+ Sbjct: 2394 LTKACSLCKRNFTLNLF 2344 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HDED_ECOLI P0AET5 Protein hdeD (190 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HDFR_ECOLI P0A8R9 HTH-type transcriptional regulator hdfR (H-NS-dependent flhDC regulator) (279 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HDHA_ECOLI P0AET8 7-alpha-hydroxysteroid dehydrogenase (7-alpha-HSDH) (1.1.1.159) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.73 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.73, Method: Compositional matrix adjust. Identities = 11/30 (36%), Positives = 14/30 (46%) Frame = -3 Query: 113 RAYELNVFSFFHLSQLVAPEMEKNGGGVIL 142 R L++FS LS P E + VIL Sbjct: 2249 RKRSLSIFSNVFLSHKRQPSGENSSPKVIL 2160 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HELD_ECOLI P15038 Helicase IV (3.6.1.-) (75 kDa helicase) (684 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEM1_ECOLI P0A6X1 Glutamyl-tRNA reductase (GluTR) (1.2.1.70) (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +2 Query: 366 ALEQGGDAQAI 376 A+E+G AQAI Sbjct: 4793 AVEEGNSAQAI 4825 Score = 16.9 bits (32), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/25 (24%), Positives = 16/25 (64%), Gaps = 5/25 (20%) Frame = +3 Query: 57 LSVEEQDNLQEALI-----RWLCDY 76 +S+E+Q+ + +++ +WLC + Sbjct: 3981 ISIEKQEISRPSVVGKWSVKWLCQH 4055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEM2_ECOLI P0ACB2 Delta-aminolevulinic acid dehydratase (ALADH) (ALAD) (4.2.1.24) (Porphobilinogen synthase) (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEM3_ECOLI P06983 Porphobilinogen deaminase (PBG) (2.5.1.61) (Hydroxymethylbilane synthase) (HMBS) (Pre-uroporphyrinogen synthase) (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.40, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 16/28 (57%), Gaps = 3/28 (10%) Frame = -3 Query: 101 REDPRDAFVSNNYDSLDAL---PAGSIV 125 +ED R F+ +++DS+ + PA V Sbjct: 1562 KEDHRFLFILHHFDSMQRVAPQPAHHFV 1479 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEM4_ECOLI P09126 Uroporphyrinogen-III synthase (UROS) (4.2.1.75) (Hydroxymethylbilane hydrolyase [cyclizing]) (Uroporphyrinogen-III cosynthetase) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.91, Method: Compositional matrix adjust. Identities = 8/46 (17%), Positives = 20/46 (43%), Gaps = 4/46 (8%) Frame = -1 Query: 148 RGAEVTFCECY-QRCAIHYDGAEEAMRWQ---AREVTMVVVTSGEM 189 R +TF CY R + + + W+ E++ +++ ++ Sbjct: 4822 RLCRITFFNCYVHRFCVFVNNDRSYLSWRHSVKNELSRIIIPQNDI 4685 Score = 18.9 bits (37), Expect = 0.97, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%), Gaps = 2/15 (13%) Frame = -2 Query: 146 TARGAEVTFC--ECY 158 TAR A TFC C+ Sbjct: 4245 TARSASRTFCTITCF 4201 Score = 16.9 bits (32), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -2 Query: 26 AWHFPL 31 AWHF L Sbjct: 4920 AWHFSL 4903 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEM6_ECOLI P36553 Coproporphyrinogen-III oxidase, aerobic (Coproporphyrinogenase) (Coprogen oxidase) (1.3.3.3) (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.26, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 15/34 (44%) Frame = -1 Query: 129 FDLTPFYGFEEDAIHWHRTARDLCLPFGEDVYPR 162 ++L P GFE + H + CLP Y R Sbjct: 3019 YELVPRTGFEPVSPIEHYHLKVACLPISPPRY*R 2918 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +2 Query: 141 AIHWHRTARDLCL 153 A+H R LCL Sbjct: 2609 ALHLERVPPQLCL 2647 Score = 16.5 bits (31), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +1 Query: 115 EKPGADP 121 +KP ADP Sbjct: 6859 DKPNADP 6879 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEMG_ECOLI P0ACB4 Protoporphyrinogen oxidase (PPO) (1.3.3.4) (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 9.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -2 Query: 114 WRPDRCAV 121 WR RC+V Sbjct: 591 WRL*RCSV 568 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEMH_ECOLI P23871 Ferrochelatase (4.99.1.1) (Protoheme ferro-lyase) (Heme synthetase) (320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 17/33 (51%) Frame = +2 Query: 25 KRYLKQFLSDRRVVDTSRLLWWPLLRGVILPLR 57 +RY +Q D ++ L +G+ILPL+ Sbjct: 575 QRYKRQVSGDEAYLNAPALKRLNASQGIILPLQ 673 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 14/33 (42%) Frame = -1 Query: 244 MPYTDETLKMLGEKGVGHIQVMCPGFAADCLET 276 MP+ L + H+Q++ GF L T Sbjct: 1465 MPFRIGELHATTVAKITHLQLIATGF*FRILRT 1367 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -1 Query: 27 YLKQFLSDRRV 37 Y FLSDRR+ Sbjct: 1759 YY*SFLSDRRL 1727 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +2 Query: 276 TLEEIAEQ 283 TLE++AEQ Sbjct: 5234 TLEDLAEQ 5257 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +3 Query: 49 LRGVILPLRSPRVAKLYA 66 L+ VIL R + K+YA Sbjct: 4797 LKKVILHKRLGAMVKMYA 4850 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEMK_ECOLI P0ACC1 Protein methyltransferase hemK (2.1.1.-) (Protein-glutamine N-methyltransferase hemK) (Protein-(glutamine-N(5)) MTase hemK) (M.EcoKHemKP) (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 1/22 (4%) Frame = -2 Query: 193 HLQQGDVRFE-PLTALVAADSG 213 H G +R LTA++A D+G Sbjct: 4623 HAPIGSIRLSLVLTAILARDAG 4558 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 14/42 (33%), Positives = 16/42 (38%) Frame = +2 Query: 11 ISQLQASESPRRDAEILLEHVTGRGRTFILAFGETQLTDEQC 52 +SQL E L E RT I F E DE+C Sbjct: 4853 VSQLSGWELNVMTINELKEKCQAETRTAIDMFIEHLEIDEEC 4978 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEMN_ECOLI P32131 Oxygen-independent coproporphyrinogen-III oxidase (Coproporphyrinogenase) (Coprogen oxidase) (1.3.99.22) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 13/31 (41%) Frame = -1 Query: 370 RRDVIKSLICNFRLDYAPIEKQWDLHFADYF 400 RR ++ NF + W HF D+F Sbjct: 4117 RRVLLSLFFTNFLRRF*RNFTCWHNHFTDHF 4025 Score = 16.9 bits (32), Expect = 7.7, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 15/34 (44%) Frame = -1 Query: 94 VHRAPLFAGRHVSQLHWGGGTPTYLNKAQISRLM 127 VHR +F S L W K ++SR++ Sbjct: 4789 VHRFCVFVNNDRSYLSWRHSV-----KNELSRII 4703 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEMX_ECOLI P09127 Putative uroporphyrinogen-III C-methyltransferase (Urogen-III methylase) (2.1.1.107) (ORF X) (393 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +2 Query: 238 SISEWRINL 246 +I EWR+NL Sbjct: 6494 AIWEWRVNL 6520 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/34 (23%), Positives = 17/34 (50%) Frame = -2 Query: 263 RDDTAVPLLAPNQDIYLRENIRSRLLVAAQAVPR 296 R +PL+ ++ R +I S ++ + +PR Sbjct: 4431 RISYKIPLMRSPGRMFSRGSISSCPIIPSALLPR 4330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEMY_ECOLI P0ACB7 Protein hemY (398 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HEXR_ECOLI P46118 HTH-type transcriptional regulator hexR (Hex regulon repressor) (289 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 17/55 (30%), Positives = 28/55 (50%) Frame = -2 Query: 101 SAMATLDHVRHSLDKSAINRAVDLLTQAKKIAFFGLGSSAAVAHDAMNKFFRFNV 155 SA ++ H+ + +AI+R+ K+A F SSA + ++ FFR NV Sbjct: 5253 SARSSSVQTPHAANLNAISRS--------KLAKFN-KSSAGLLSPKLSSFFRANV 5116 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 8/33 (24%) Frame = +1 Query: 265 NLKRVKEALKES--------RFDKQLLNLSDDR 289 N KRV++ALK + +++ + +S+D+ Sbjct: 427 NQKRVEDALKSAGLLS*LLGKYNGYITKISNDK 525 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HFLC_ECOLI P0ABC3 Protein hflC (3.4.-.-) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 52 LHFKIPFIETVK 63 LHF +PF ++ Sbjct: 5995 LHFLLPFYALLQ 5960 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HFLK_ECOLI P0ABC7 Protein hflK (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.45, Method: Compositional matrix adjust. Identities = 16/57 (28%), Positives = 24/57 (42%) Frame = +3 Query: 214 SDTQRELEETIRPYDMGITLLDVNFQAARPPEEVKAAFDDAIAARENEQQYIREAEA 270 +D + L T P+ + + L + F AR AF REN Y+R A + Sbjct: 2373 TDCRLSLVST--PF*IALRLFAIFFSDARNRGT**RAFFMW*PHRENRYNYVRNAAS 2537 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HFLX_ECOLI P25519 GTP-binding protein hflX (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 28 0.004 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 28.1 bits (61), Expect = 0.004, Method: Compositional matrix adjust. Identities = 27/102 (26%), Positives = 47/102 (46%), Gaps = 1/102 (0%) Frame = +1 Query: 198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVGETVLADTVGFIR 257 P V+++G+ + GK++L + I +V A + T ++ + G DT G Sbjct: 6532 PVVTIMGHVDHGKTSLLDCIRSTKVAAGEAGGITQHIGAYHVETEN-GMVTFLDTPGH-- 6702 Query: 258 HLPHDLVAAFKATLQETRQATLLLHVIDAADVRVQ-ENIEAV 298 AAF + QAT ++ ++ AAD V + IEA+ Sbjct: 6703 -------AAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAI 6807 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 14/33 (42%) Frame = -3 Query: 64 VEIAEAVKATGASVVLFDHALSPAQERNLERLC 96 VEI+ A SV+LF A R R C Sbjct: 5426 VEISAASNFMVTSVMLFLPATVITHYRQTSRYC 5328 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HFQ_ECOLI P0A6X3 Protein hfq (Host factor-I protein) (HF-I) (HF-1) (102 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -1 Query: 1 MAKGQSLQDPFLN 13 +A+ QSL FLN Sbjct: 5503 LAE*QSLFQIFLN 5465 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HHA_ECOLI P0ACE3 Hemolysin expression-modulating protein (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HINT_ECOLI P0ACE7 HIT-like protein hinT (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.3, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 42 IIPNILIPTVN 52 IIP+ L+P N Sbjct: 4356 IIPSALLPRSN 4324 Score = 14.6 bits (26), Expect = 9.0, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +1 Query: 1 MAEETIFSKIIRRE 14 +AEE I+RRE Sbjct: 6421 VAEEMGHKVILRRE 6462 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIPA_ECOLI P23874 Protein hipA (440 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIPB_ECOLI P23873 HTH-type transcriptional regulator hipB (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.6, Method: Composition-based stats. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = +3 Query: 4 FQKIYSPTQLANAMKLVRQQNGW 26 +K +S LAN+ Q N W Sbjct: 690 LRKYHSKVPLANS*TFGHQFNPW 758 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIS1_ECOLI P60757 ATP phosphoribosyltransferase (ATP-PRTase) (ATP-PRT) (2.4.2.17) (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +3 Query: 4 NTRLRIAMQK 13 N LRIAMQ Sbjct: 3660 NLTLRIAMQN 3689 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIS2_ECOLI P06989 Histidine biosynthesis bifunctional protein hisIE (Phosphoribosyl-AMP cyclohydrolase) (PRA-CH) (3.5.4.19) (Phosphoribosyl-ATP pyrophosphatase) (PRA-PH) (3.6.1.31) (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.30, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 10/20 (50%) Frame = -2 Query: 63 TKGETSGNFLNVVSIAPDCD 82 TKG G N + AP CD Sbjct: 759 TKG*IGGRMSNCLPTAPCCD 700 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIS4_ECOLI P10371 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase (5.3.1.16) (Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.11, Method: Compositional matrix adjust. Identities = 13/59 (22%), Positives = 29/59 (49%) Frame = +2 Query: 116 FERFGADALVLALDVRIDEQGNKQVAVSGWQENSGVSLEQLVETYLPVGLKHVLCTDIS 174 F R+ + V+ I + ++++ Q+N+ +S E + TY+ +K V+ I+ Sbjct: 4013 FRRWKVVSEVVMPTREITLEAAQEISKEEAQQNTPISTESEIPTYIEDQIKSVVFDRIT 4189 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +1 Query: 191 CARYPQVAFQSSGGI 205 C R +VA +GGI Sbjct: 6586 CIRSTKVAAGEAGGI 6630 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 11/25 (44%) Frame = +1 Query: 148 NSGVSLEQLVETYLPVGLKHVLCTD 172 SG + +TY L+H L T Sbjct: 1183 TSGT*R*RFTQTYCTSTLRHRLATS 1257 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 1/22 (4%) Frame = +2 Query: 47 HLVDLTGA-KDPAKRQIPLIKT 67 L+++ A +DPA R +KT Sbjct: 4526 ELIEIKAAIRDPASRAKIAVKT 4591 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIS5_ECOLI P60595 Imidazole glycerol phosphate synthase subunit hisH (2.4.2.-) (IGP synthase glutamine amidotransferase subunit) (IGP synthase subunit hisH) (ImGP synthase subunit hisH) (IGPS subunit hisH) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIS6_ECOLI P60664 Imidazole glycerol phosphate synthase subunit hisF (4.1.3.-) (IGP synthase cyclase subunit) (IGP synthase subunit hisF) (ImGP synthase subunit hisF) (IGPS subunit hisF) (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 1 MLAKRIIPC 9 MLA R +PC Sbjct: 3520 MLATR*VPC 3546 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIS7_ECOLI P06987 Histidine biosynthesis bifunctional protein hisB (Histidinol-phosphatase) (3.1.3.15) (Imidazoleglycerol-phosphate dehydratase) (IGPD) (4.2.1.19) (355 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = -1 Query: 260 LPMDECLARCALDISGRPHLE 280 LPM CL + G P L+ Sbjct: 1849 LPMLRCLKAVVPFVWGYPQLQ 1787 Score = 16.5 bits (31), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 300 HFFRSL 305 HFFRSL Sbjct: 2914 HFFRSL 2897 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIS8_ECOLI P06986 Histidinol-phosphate aminotransferase (2.6.1.9) (Imidazole acetol-phosphate transaminase) (HspAT) (HPAT) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HISJ_ECOLI P0AEU0 Histidine-binding periplasmic protein (HBP) (Precursor) (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.4, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 13/18 (72%) Frame = +1 Query: 215 VGTGMGLRKEDNELREAL 232 +G + LR+E NEL EAL Sbjct: 6433 MGHKVILRRE-NELEEAL 6483 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 8/14 (57%) Frame = -2 Query: 150 EHWAPKGIEIVSYQ 163 +W P+ +SY+ Sbjct: 4458 NNWGPRASGRISYK 4417 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HISM_ECOLI P0AEU3 Histidine transport system permease protein hisM (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.22 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.22, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 10/12 (83%) Frame = +1 Query: 68 GTPLYVQLLVFY 79 GT +YV LLVF+ Sbjct: 2509 GTTMYVTLLVFF 2544 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -2 Query: 141 FSTFKMYRCIILPSAL 156 FS + C I+PSAL Sbjct: 4386 FSRGSISSCPIIPSAL 4339 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HISP_ECOLI P07109 Histidine transport ATP-binding protein hisP (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +1 Query: 65 NGQTINLVRDKDGQLKVAD 83 NG + DKD + VAD Sbjct: 493 NGYITKISNDKDNKRFVAD 549 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HISQ_ECOLI P52094 Histidine transport system permease protein hisQ (228 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.15 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.15, Method: Compositional matrix adjust. Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 2/54 (3%) Frame = -2 Query: 83 MGVGQIDIDPMVAGIITLGFIYGAYFTETFRGAF--MAVPKGHIEAATAFGFTR 134 M +GQ D+ G FI+ +FT F F H F F+R Sbjct: 6045 MVIGQFDL--FGYGFRPFTFIFCCHFTRFFSNPFRVFFYLTAHFSFYRTFQFSR 5890 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HISX_ECOLI P06988 Histidinol dehydrogenase (HDH) (1.1.1.23) (434 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.38, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 12/15 (80%) Frame = -3 Query: 266 SQVILLTPAADMARR 280 S + LLT AAD+A+R Sbjct: 1286 SSLFLLTQAADVAKR 1242 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HIUH_ECOLI P76341 5-hydroxyisourate hydrolase (HIU hydrolase) (HIUHase) (3.5.2.17) (Transthyretin-related protein) (TRP) (Transthyretin-like protein) (TLP) (Precursor) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.7, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 118 EHYHVPLLLSQYG 130 E+ PLL+ +YG Sbjct: 1726 EYVDHPLLMYRYG 1688 Score = 16.5 bits (31), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 61 NTAKTDKDGRIK 72 N TDK GR++ Sbjct: 1145 NAQNTDKIGRLE 1180 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HLDD_ECOLI P67910 ADP-L-glycero-D-manno-heptose-6-epimerase (5.1.3.20) (ADP-L-glycero-beta-D-manno-heptose-6-epimerase) (ADP-glyceromanno-heptose 6-epimerase) (ADP-hep 6-epimerase) (AGME) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 9/48 (18%) Frame = -1 Query: 104 CLEREIPFLYASSAATYGGRTSD------FIESREYE---KPLNVYGY 142 CL+ +PF++ G +D F+ R E PL +Y Y Sbjct: 1834 CLKAVVPFVWGYPQLQVGS**ND*TYY*SFLSDRRLEYVDHPLLMYRY 1691 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -1 Query: 94 YQYSKELLHYCLEREIPFLY 113 + ++K L HYC FLY Sbjct: 4273 FLFTKLLNHYCSFSFAYFLY 4214 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HLDE_ECOLI P76658 Bifunctional protein hldE (D-beta-D-heptose 7-phosphate kinase) (2.7.1.-) (D-beta-D-heptose 7-phosphotransferase) (D-beta-D-heptose 1-phosphate adenosyltransferase) (2.7.7.-) (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -3 Query: 426 PDLLVKGGDYKPEEIA 441 PDL + Y+P+E+ Sbjct: 3137 PDLNQRPSGYEPDELP 3090 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HLYE_ECOLI P77335 Hemolysin E, chromosomal (Hemolysis-inducing protein) (Silent hemolysin sheA) (Cytotoxin clyA) (Latent pore-forming 34 kDa hemolysin) (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HMP_ECOLI P24232 Flavohemoprotein (Hemoglobin-like protein) (Flavohemoglobin) (HMP) (Nitric oxide dioxygenase) (NO oxygenase) (NOD) (1.14.12.17) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HNR_ECOLI P0AEV1 Protein hnr (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -1 Query: 324 WGTGGRLRLMLSA 336 WG LR++LSA Sbjct: 3808 WGARFALRILLSA 3770 Score = 16.9 bits (32), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 263 LLVGYYH 269 LL+G+YH Sbjct: 2286 LLIGFYH 2266 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HNS_ECOLI P0ACF8 DNA-binding protein H-NS (Histone-like protein HLP-II) (Protein H1) (Protein B1) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOFB_ECOLI P36645 Protein transport protein hofB (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.32, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 12/14 (85%) Frame = -1 Query: 42 HFATTKRIEITCWT 55 HF TT+ +EI+C++ Sbjct: 4030 HFPTTEGLEISCFS 3989 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/10 (80%), Positives = 9/10 (90%) Frame = -2 Query: 272 TFQGVLRALL 281 TFQG+L ALL Sbjct: 459 TFQGILDALL 430 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%) Frame = -2 Query: 197 LGMQPLQLADFAHALQ 212 LGM+PL D ALQ Sbjct: 3600 LGMRPLSCRDR*SALQ 3553 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 139 VLGNLDIAEHR 149 VLGN+ +HR Sbjct: 2722 VLGNMSSKQHR 2754 Score = 16.9 bits (32), Expect = 9.1, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 14/25 (56%) Frame = -1 Query: 178 EKVVLRLLQQVGQALDVNTLGMQPL 202 ++ V RLL G L + + +QPL Sbjct: 5962 QQPVSRLLLSYGALLVLQNVSVQPL 5888 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOFC_ECOLI P36646 Protein transport protein hofC (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.89, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 15/36 (41%) Frame = +1 Query: 51 NSAQWRGDKSAEVIHQLATLLKAGLTLSEGLALLAE 86 N A+ GD+ + T K G LSE A E Sbjct: 6085 NDAKVEGDRRSRSRGSKTTKQKKGNKLSESKADREE 6192 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -1 Query: 346 NLAHHHR 352 NL+HHHR Sbjct: 169 NLSHHHR 149 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = -2 Query: 263 LTQIFTILALT 273 LTQIF + ALT Sbjct: 2784 LTQIFPLTALT 2752 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOFQ_ECOLI P34749 Protein transport protein hofQ (Precursor) (412 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 11/21 (52%), Positives = 13/21 (61%) Frame = -2 Query: 219 LGSDLSVATATTHVGFNIGRI 239 GS S A ATT + FN+G I Sbjct: 6144 FGSFTSPA-ATTAISFNLGII 6085 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 16/28 (57%) Frame = +3 Query: 319 KLHISQNVPGQVLQQADGEVLAIDKQEI 346 KLH Q + ++ +++I+KQEI Sbjct: 3921 KLH*RQRPRKNMNKKLKSGLISIEKQEI 4004 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOKA_ECOLI P37305 Protein hokA (50 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.1, Method: Composition-based stats. Identities = 9/19 (47%), Positives = 10/19 (52%) Frame = -1 Query: 27 SLCELHIKQESYELAAFLA 45 SL HIK Y + FLA Sbjct: 2503 SLWGHHIKNALYYVPLFLA 2447 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOKB_ECOLI P77494 Protein hokB (49 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOKC_ECOLI P0ACG4 Protein hokC (Protein gef) (50 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOKD_ECOLI P0ACG6 Protein hokD (Protein relF) (51 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 1.9, Method: Composition-based stats. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +1 Query: 8 LIALIVI 14 LIALIV+ Sbjct: 2563 LIALIVL 2583 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOKE_ECOLI P77091 Protein hokE (50 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOLA_ECOLI P28630 DNA polymerase III subunit delta (2.7.7.7) (343 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.35 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.35, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = -1 Query: 49 EHHTFSIDPNTDWNAIF 65 E FSID N D+N +F Sbjct: 4006 EISCFSIDINPDFNFLF 3956 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 14/22 (63%) Frame = +1 Query: 113 RGNKLSKAQENAAWFTALANRS 134 +GNKLS+++ + A+ +S Sbjct: 6151 KGNKLSESKADREEARAVGRKS 6216 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOLB_ECOLI P28631 DNA polymerase III subunit delta' (2.7.7.7) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 274 VAELANHLSPSRLQAI 289 VAELAN ++ Q I Sbjct: 6304 VAELANKMAVKGSQVI 6351 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 2/32 (6%) Frame = -3 Query: 281 LSPSRLQAILGDV--CHIREQLMSVTGINREL 310 ++PSRLQA L + I L S GI R Sbjct: 380 INPSRLQAHLTAIGLASINNSLCS--GIKRSF 291 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +3 Query: 284 SRLQAILGDVCHIRE 298 S LQA++ VC+ +E Sbjct: 957 SPLQAVIRLVCNSKE 1001 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOLC_ECOLI P28905 DNA polymerase III subunit chi (2.7.7.7) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.5, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 16/35 (45%) Frame = +2 Query: 36 GKRVLIACEDEKQAYRLDEALWARPAESFVPHNLA 70 G RV A +E R+D LW FV + +A Sbjct: 4637 GARVQ-AVSNELGGERIDIVLWDDNPAQFVLNAMA 4738 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOLD_ECOLI P28632 DNA polymerase III subunit psi (2.7.7.7) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Composition-based stats. Identities = 7/22 (31%), Positives = 13/22 (59%) Frame = -3 Query: 95 PLSLEGAQVASPALTDLRANPT 116 P ++ VAS L+ ++ +PT Sbjct: 188 PFCIKSKPVASSPLSRIKLSPT 123 Score = 15.4 bits (28), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -1 Query: 83 SHCNSWRLGT 92 S C + LGT Sbjct: 5125 SQCGQYILGT 5096 Score = 15.0 bits (27), Expect = 8.7, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = -3 Query: 120 ALWQQICTY 128 ++W Q C Y Sbjct: 1604 SIWLQ*CDY 1578 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HOLE_ECOLI P0ABS8 DNA polymerase III subunit theta (2.7.7.7) (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.9, Method: Compositional matrix adjust. Identities = 11/40 (27%), Positives = 18/40 (45%) Frame = +1 Query: 29 ERYNMPVIAEAVEREQPEHLRSWFRERLIAHRLASVNLSR 68 +RY M + + +P H RS + +RL + SR Sbjct: 829 KRYIMVTNYHSDAKREPPHRRSSGCKSNAHYRLDKMEPSR 948 Score = 14.2 bits (25), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = +1 Query: 24 GVAFKERYNMPVI 36 GVA + PV+ Sbjct: 6502 GVAGESALRAPVV 6540 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HPPK_ECOLI P26281 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase (2.7.6.3) (7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase) (HPPK) (6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase) (PPPK) (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HPRT_ECOLI P0A9M2 Hypoxanthine phosphoribosyltransferase (HPRT) (2.4.2.8) (178 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.47, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = -3 Query: 160 YAQRYRHLPYI 170 + +RYRH+P + Sbjct: 1214 WVKRYRHVPLV 1182 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HRPA_ECOLI P43329 ATP-dependent RNA helicase hrpA (3.6.1.-) (1300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 2.6, Method: Composition-based stats. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -1 Query: 961 HWDQVPDHLKITFRVVDD 978 WD+ DH T +++ D Sbjct: 1999 QWDRAADHFSKTAQIMGD 1946 Score = 20.0 bits (40), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 13/18 (72%) Frame = +1 Query: 682 RIAARIDPEWVEPVAQHL 699 ++AA + +W EP+A+ + Sbjct: 5974 KMAAENEGKWPEPIAEQI 6027 Score = 19.2 bits (38), Expect = 5.3, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -1 Query: 1192 LVYRGFVTGNGF 1203 L ++GF+ NGF Sbjct: 3901 LTWKGFLIRNGF 3866 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HRPB_ECOLI P37024 ATP-dependent RNA helicase hrpB (3.6.1.-) (809 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 6.9, Method: Compositional matrix adjust. Identities = 14/44 (31%), Positives = 21/44 (47%) Frame = +1 Query: 150 LKLLIMSATLDNDRLQQMLPEAPVVISEGRSFPVERRYLPLPAH 193 +KLL + DRL Q +A + SE S + + + L AH Sbjct: 5398 IKLLAAEISTSVDRLIQQFADAGLKKSETSSVTQQEKEI-LLAH 5526 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HRSA_ECOLI P54745 Heat-responsive suppressor hrsA (Putative PTS system EIIABC component) (Phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system EIIA component) (Phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system EIIB component) (Permease IIC component) (PTS system EIIC component) (658 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.6, Method: Compositional matrix adjust. Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 6/47 (12%) Frame = -1 Query: 12 YKNDQVRIMMNLTTLTHRDAL------CLNARFTSREEAIHALTQRL 52 ++ Q+ + L + HR + N+ F+ +A+H +QRL Sbjct: 2158 FQTSQIPV*NPLESNQHRQTIY*VHH*LDNSAFSFAPDALH*PSQRL 2018 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSCA_ECOLI P0A6Z1 Chaperone protein hscA (Hsc66) (616 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSCB_ECOLI P0A6L9 Co-chaperone protein hscB (Hsc20) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.45, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 14/27 (51%) Frame = +1 Query: 51 SATINQAWQTLRHPLMRAEYLLSLHGF 77 S T WQT+RH + L ++ GF Sbjct: 697 SITARCRWQTVRHSATNST-LGTIKGF 774 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSCC_ECOLI P77319 Chaperone protein hscC (Hsc62) (556 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.6, Method: Compositional matrix adjust. Identities = 21/82 (25%), Positives = 35/82 (42%), Gaps = 5/82 (6%) Frame = +2 Query: 104 EDAEEFLQRPIKDVVISVP-----AYFSDEQRKHTRLAAELAGLNAVRLINEPTAAAMAY 158 E+ LQ+ + +ISV A S EQR +++ + A LNA P Sbjct: 485 ENIMAILQKSVMIKIISVLWLMLLAACSTEQRYKRQVSGDEAYLNA------P------- 625 Query: 159 GLHTQQNTRSLVFDLGGGTFDV 180 L ++ ++ L GT+D+ Sbjct: 626 ALKRLNASQGIILPLQHGTYDI 691 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSLJ_ECOLI P52644 Heat shock protein hslJ (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSLO_ECOLI P0A6Y5 33 kDa chaperonin (Heat shock protein 33) (HSP33) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 7/29 (24%) Frame = +2 Query: 75 MNLAVINGN-------NNQQMRGVARVQG 96 MN+AV GN N Q +R V+++ G Sbjct: 4784 MNIAVEEGNSAQAIGRNGQNVRLVSQLSG 4870 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSLR_ECOLI P0ACG8 Heat shock protein 15 (HSP15) (133 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSLU_ECOLI P0A6H5 ATP-dependent hsl protease ATP-binding subunit hslU (Heat shock protein hslU) (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.2, Method: Compositional matrix adjust. Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 9/56 (16%) Frame = +1 Query: 112 RVQAIEKNRYRAEELAE---------ERILDVLIPPAKNNWGQTEQQQEPSAARQA 158 +V+ +EK +AEE A+ ++I D P T QQQ R+A Sbjct: 5719 QVEQVEKKPAKAEEQAKSESAKEANAKKIADTKSKPIVEKKKLTTQQQSDKTRREA 5886 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSLV_ECOLI P0A7B8 ATP-dependent protease hslV (3.4.25.-) (Heat shock protein hslV) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 157 GDICIYTNHFHTI 169 GD+ +HFH + Sbjct: 6112 GDLLQPWHHFHLL 6074 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSPQ_ECOLI P0AB20 Heat shock protein hspQ (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.7, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 28 PVYSLSEPSPDEL 40 PV+ + SPD L Sbjct: 6672 PVFGFNVISPDML 6634 Score = 15.8 bits (29), Expect = 3.4, Method: Composition-based stats. Identities = 6/21 (28%), Positives = 11/21 (52%) Frame = -3 Query: 26 IDPVYSLSEPSPDELAVNDEL 46 +DP P+P+E ++ L Sbjct: 2654 LDPNRVEEAPAPNEAPISAPL 2592 Score = 14.6 bits (26), Expect = 7.5, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = +1 Query: 75 SELQDEHPEQPSMDE 89 S Q HP ++DE Sbjct: 3784 SAKQTGHPTFKNLDE 3828 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HSRA_ECOLI P31474 Probable transport protein hsrA (High-copy suppressor of rspA) (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.6, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 13/24 (54%) Frame = -1 Query: 46 LAMQSAIISYTLTVAMLIPVSGWL 69 L Q+A+ L + L+P + WL Sbjct: 5464 LHQQTAV*GDQLKLRSLLPATLWL 5393 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HTGA_ECOLI P28697 Putative uncharacterized protein htgA (Heat shock protein htpY) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.56, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 11/25 (44%) Frame = +2 Query: 27 TLIAAWVRKMRVSWLESKCDTPFAN 51 TL W++ W + D PFA Sbjct: 911 TLTTDWIK-----WNRADEDVPFAG 970 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HTPG_ECOLI P0A6Z3 Chaperone protein htpG (Heat shock protein htpG) (High temperature protein G) (Heat shock protein C62.5) (624 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 13/26 (50%) Frame = -1 Query: 125 VGFYSAFIVADKVTVRTRAAGEKPEN 150 +GF +A + + RT +P+N Sbjct: 613 IGFITAHLAFITLFCRTSG*QHQPQN 536 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HTPX_ECOLI P23894 Probable protease htpX (3.4.24.-) (Heat shock protein htpX) (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.11, Method: Compositional matrix adjust. Identities = 12/37 (32%), Positives = 20/37 (54%) Frame = -3 Query: 189 NGNPLIYFAVATVLELVFGILASIITMWFSRHREFHA 225 +GNPLI V V E + + + +++R+FHA Sbjct: 779 SGNPLIVPRVELVAE-CLTVCQRHLAVILAQYRKFHA 672 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 11/21 (52%), Positives = 13/21 (61%) Frame = +1 Query: 15 MVVFGLVLSLTGIQSSSVQGL 35 +V F S GIQ SSV+GL Sbjct: 5170 LVKFSKFRS*YGIQISSVRGL 5232 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 16/29 (55%) Frame = -3 Query: 166 ISRILAQLAAGFMGGNRDEGEESNGNPLI 194 +SRI GF+ +R + ++ NP+I Sbjct: 149 LSRIKLSPTLGFIMLSRSKFPVASFNPMI 63 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 217 FSRHREFHADAGS 229 FSR R+F + S Sbjct: 3903 FSRGRDFSLETAS 3865 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HTRB_ECOLI P0ACV0 Lipid A biosynthesis lauroyl acyltransferase (2.3.1.-) (Heat shock protein B) (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 12/39 (30%), Positives = 21/39 (53%) Frame = +3 Query: 162 DWLQTWGRLRSNKSMLDRKDLKGMIKALKKGEVVWYAPD 200 D+L L +M +R+ +G+IKA+ GE++ D Sbjct: 3639 DYLGERINLTLRIAMQNRRKWQGIIKAV-DGEMIIVTVD 3752 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 202 DYGPRSSV 209 D+G RSSV Sbjct: 1418 DFGNRSSV 1441 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HTRC_ECOLI P27375 Heat shock protein C (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.36, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = -1 Query: 144 VTSAYPISEKQKGKS 158 +TS YP S+ +GK+ Sbjct: 2224 LTSFYPTSDSHRGKT 2180 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 13/49 (26%), Positives = 19/49 (38%) Frame = -2 Query: 13 HPDGDIRDLSFLDAHQAVYVQHHEGKEPLEYRFWVTYSLHCFTKDYEHQ 61 H GD R SF H + + P+E +T C + +HQ Sbjct: 1815 HLCGDTR--SFKSVHNEMIKLIIDHSFPIEGLNTLTIHC*CIVTELQHQ 1675 Score = 16.2 bits (30), Expect = 5.0, Method: Compositional matrix adjust. Identities = 12/49 (24%), Positives = 18/49 (36%) Frame = +1 Query: 124 KAFYFVAFRAFREKKKLRLHVTSAYPISEKQKGKSVKFFTIAYNLLRNK 172 KAF + + + KKL V G + F + + L NK Sbjct: 2017 KAFGWASEAHLAQMKKLSYQVNDVLSKLFDDAGLILVDFKLEFGLFENK 2163 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HTRE_ECOLI P33129 Outer membrane usher protein htrE (Heat shock protein E) (Precursor) (865 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HTRL_ECOLI P25666 Protein htrL (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 13/19 (68%) Frame = +2 Query: 209 HKWKEFYKLVLESQKITLN 227 +WK ++V+ +++ITL Sbjct: 4016 RRWKVVSEVVMPTREITLE 4072 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -1 Query: 235 QGIFVMCYYKRPD 247 G+ YY RPD Sbjct: 2755 DGVACYSYYLRPD 2717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYAD_ECOLI P19930 Hydrogenase 1 maturation protease (3.4.23.-) (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYAE_ECOLI P19931 Hydrogenase-1 operon protein hyaE (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.33, Method: Compositional matrix adjust. Identities = 14/38 (36%), Positives = 16/38 (42%) Frame = +1 Query: 4 DTPFDALWQRMLARGWTPVSESRLDDWLTQAPDGVVLL 41 DTP A + M ARG QA D VVL+ Sbjct: 6688 DTPGHAAFTSMRARG-------------AQATDIVVLV 6762 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYAF_ECOLI P19932 Hydrogenase-1 operon protein hyaF (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 3/34 (8%) Frame = -1 Query: 170 LAHELLAHVRN---PDAQPHSINLTQLPISEADR 200 LAH LL+H N D P S + P S++ R Sbjct: 2287 LAHRLLSHRLNCHESDLYP-SFLTSFYPTSDSHR 2189 Score = 16.2 bits (30), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -2 Query: 52 LLNELQHQL 60 ++ ELQHQ+ Sbjct: 1698 IVTELQHQI 1672 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYBA_ECOLI P0AAJ8 Hydrogenase-2 operon protein hybA (Precursor) (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.13, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 16/26 (61%), Gaps = 4/26 (15%) Frame = +1 Query: 174 CELCNQKGVERLDK----GGLPGCVE 195 C L ++K +E++DK G L G +E Sbjct: 2197 CRLWDKKTLEKMDKDRFRGNLGGVIE 2274 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +3 Query: 145 CTGCRYCMVACPY 157 CT CR +V+ P+ Sbjct: 2370 CTDCRLSLVSTPF 2408 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -2 Query: 92 SGTGVNKDQEENG 104 SGT N +EEN Sbjct: 5037 SGT*ANSSKEENS 4999 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = +3 Query: 302 AVLAGLTVLVRRNTKNDHHD 321 A+ AGL ++ ++ + HD Sbjct: 5328 AISAGLAIMRNNCSRKEQHD 5387 Score = 17.7 bits (34), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -3 Query: 12 CGALLTGALPSVSHA 26 C A+ +G LPS S A Sbjct: 6023 CSAMGSGHLPSFSAA 5979 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/22 (22%), Positives = 11/22 (50%) Frame = -3 Query: 43 DSTLCVGCQACVTKCQDINFPE 64 +++LC G + + +N P Sbjct: 326 NNSLCSGIKRSFKRPASVNLPS 261 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +3 Query: 153 VACPYNV 159 + CPYN+ Sbjct: 3564 ITCPYNL 3584 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 7/14 (50%) Frame = +3 Query: 284 ARSENIQHTLYKGM 297 R HT Y+G+ Sbjct: 6609 GRGSRRDHTAYRGL 6650 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYBB_ECOLI P37180 Probable Ni/Fe-hydrogenase 2 b-type cytochrome subunit (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.31, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 2/23 (8%) Frame = -3 Query: 77 YVFNRGQYHP--LVRPALLASLF 97 ++F RGQ HP + + L+A F Sbjct: 3383 FLFQRGQTHPQGIKKKGLIAQSF 3315 Score = 20.0 bits (40), Expect = 0.79, Method: Compositional matrix adjust. Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 8/75 (10%) Frame = -2 Query: 96 LFGYSLGGLSI--TIDVGRYWNLPY---FYIPGHFNVNSVLFETAVCMTIYIGVMALEFA 150 LFGY + R+++ P+ FY+ HF+ + C+T G++ L + Sbjct: 6024 LFGYGFRPFTFIFCCHFTRFFSNPFRVFFYLTAHFSFYRTFQFSRFCLT--AGLVTLLLS 5851 Query: 151 PALF---ERLGWKVS 162 F RL + VS Sbjct: 5850 RQFFLFYNRLTFCVS 5806 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = +1 Query: 352 LLISIGFVAI 361 LLISIG +A+ Sbjct: 2545 LLISIGLIAL 2574 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYBD_ECOLI P37182 Hydrogenase 2 maturation protease (3.4.23.-) (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.40, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +2 Query: 80 EEVPALFTNKISPHQ 94 EE+P LFT ++ Q Sbjct: 6932 EEIPHLFTYQLKREQ 6976 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +3 Query: 110 FPKKLTLVG 118 FP+ L+LVG Sbjct: 2184 FPRWLSLVG 2210 Score = 15.4 bits (28), Expect = 6.7, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 8/8 (100%) Frame = -1 Query: 29 RYILPDYV 36 RY+LP+++ Sbjct: 6751 RYLLPEHL 6728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYBE_ECOLI P0AAN1 Hydrogenase-2 operon protein hybE (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.9, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 141 NPDVPHAGR 149 + DVP AGR Sbjct: 947 DEDVPFAGR 973 Score = 17.3 bits (33), Expect = 2.0, Method: Compositional matrix adjust. Identities = 11/52 (21%), Positives = 25/52 (48%), Gaps = 4/52 (7%) Frame = +3 Query: 75 PLRKVSEK-IGLQLPYG---TMTFTVGELDGVSQYLSCSLMSPLSHSMSIEE 122 P++ + K +G++ G T+ + DGV+ + + +S + +EE Sbjct: 3405 PVKALGHKLVGVEFIPGRQSTLRIYIDNCDGVTVDMCADVSYQVSAVLDVEE 3560 Score = 16.9 bits (32), Expect(2) = 2.1, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 10/19 (52%) Frame = -1 Query: 133 MILSLPVTNPDVPHAGRRA 151 + L++ + NP RRA Sbjct: 490 IFLAIKIVNPHFSRHPRRA 434 Score = 16.2 bits (30), Expect(2) = 2.1, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = -3 Query: 120 IEEGQRLTDDCARMILSLPV 139 + +RLT + +LSL + Sbjct: 575 VLSNKRLTTSATKRLLSLSL 516 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYBF_ECOLI P0A703 Probable hydrogenase nickel incorporation protein hybF (Hydrogenase-2 operon protein hybF) (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.77, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 90 PLCHGERLRVDT 101 P C ERL++ T Sbjct: 1619 PSCIAERLKLST 1654 Score = 16.5 bits (31), Expect = 2.2, Method: Composition-based stats. Identities = 5/18 (27%), Positives = 9/18 (50%) Frame = +2 Query: 58 QGCDLHIVYKPAQAWCWD 75 Q ++ + Y P + WD Sbjct: 1307 QQGNIAVTYSPINSRDWD 1360 Score = 14.6 bits (26), Expect = 7.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +1 Query: 88 QCPLCH 93 +CPLC Sbjct: 952 RCPLCR 969 Score = 14.2 bits (25), Expect = 9.3, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -2 Query: 46 FSFEIVCHGT 55 F+F CH T Sbjct: 6000 FTFIFCCHFT 5971 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYBG_ECOLI P0AAM7 Hydrogenase-2 operon protein hybG (82 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.6, Method: Composition-based stats. Identities = 3/7 (42%), Positives = 6/7 (85%) Frame = -3 Query: 1 MCIGVPG 7 +C+G+P Sbjct: 1814 ICVGIPA 1794 Score = 16.2 bits (30), Expect = 2.1, Method: Composition-based stats. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +2 Query: 25 CGIKR 29 CGIKR Sbjct: 2204 CGIKR 2218 Score = 14.6 bits (26), Expect = 5.1, Method: Composition-based stats. Identities = 4/12 (33%), Positives = 8/12 (66%) Frame = +3 Query: 40 NPADLLGQWVLV 51 NP + +WV++ Sbjct: 1389 NPVAISCKWVIL 1424 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCA_ECOLI P0AEV4 Formate hydrogenlyase regulatory protein hycA (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 16/32 (50%) Frame = +1 Query: 75 HTIEYYVETKDGEDKQRIAQAQLSIDGMIDGK 106 ++E V K ED +R+A+ + +GK Sbjct: 5905 RSVEREVRRKIEEDAKRVAEEARKMAAENEGK 6000 Score = 15.8 bits (29), Expect = 4.8, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 14/32 (43%) Frame = +3 Query: 3 IWEISEKADYIAQRHRRLQDQWHIYCNSLVQG 34 +W+ + A R+ + + H CN V G Sbjct: 5316 LWQPAISAGLAIMRNNCSRKEQHDRCNHKVAG 5411 Score = 15.4 bits (28), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = -2 Query: 107 VNIRDREQVLEHYLEKIAG 125 ++ RDR L+H G Sbjct: 3585 LSCRDR*SALQHLARHSPG 3529 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCB_ECOLI P0AAK1 Formate hydrogenlyase subunit 2 (FHL subunit 2) (Hydrogenase-3 component B) (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -1 Query: 130 LDWVPGIRA 138 +DW PGI + Sbjct: 3466 VDWRPGINS 3440 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCC_ECOLI P16429 Formate hydrogenlyase subunit 3 (FHL subunit 3) (Hydrogenase-3 component C) (608 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 120 CAVIASNLGMFVVMA 134 CA + S+ MF+V A Sbjct: 4818 CAELPSSTAMFIVFA 4774 Score = 18.1 bits (35), Expect = 4.6, Method: Compositional matrix adjust. Identities = 14/36 (38%), Positives = 16/36 (44%), Gaps = 6/36 (16%) Frame = -3 Query: 442 APRTKEAENATCA------PLLMSVSVVALAICCVI 471 APR + NA C + SVS ICCVI Sbjct: 6734 APRARIDVNAACPGVSKKVTIPFSVST**APICCVI 6627 Score = 17.3 bits (33), Expect = 8.5, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 15/28 (53%) Frame = -1 Query: 261 IALLVLGMITAFVGGLYALVEHNIQRLL 288 + L V + F+ YAL++ + RLL Sbjct: 6022 VRLWVQAIYLHFLLPFYALLQQPVSRLL 5939 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCD_ECOLI P16430 Formate hydrogenlyase subunit 4 (FHL subunit 4) (Hydrogenase 3 component D) (307 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -2 Query: 219 VMKWGIS 225 V KWGIS Sbjct: 6954 VNKWGIS 6934 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCE_ECOLI P16431 Formate hydrogenlyase subunit 5 (FHL subunit 5) (Hydrogenase-3 component E) (Precursor) (569 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.025 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.8 bits (55), Expect = 0.025, Method: Compositional matrix adjust. Identities = 15/37 (40%), Positives = 21/37 (56%) Frame = +2 Query: 352 MRREVQELVDVLLSTPNMEQRTVGIGRLDPEIARDFS 388 M ++ E +D + S N Q T IGRL+ + ARD S Sbjct: 1094 MLNKLIEGLDKIRSNSNNAQNTDKIGRLEVQAARDDS 1204 Score = 21.6 bits (44), Expect = 0.42, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 14/28 (50%) Frame = -3 Query: 279 ERLHSHLLNLGLACHFTGFDSGFMQFFR 306 RL +HL +GLA SG + F+ Sbjct: 371 SRLQAHLTAIGLASINNSLCSGIKRSFK 288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCF_ECOLI P16432 Formate hydrogenlyase subunit 6 (FHL subunit 6) (Hydrogenase-3 component F) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.18, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 13/28 (46%) Frame = -1 Query: 66 LAWEFNLGHCIFCGRCEEVCPTAAIKLS 93 L+ F+ GH FC R + P + S Sbjct: 1309 LSVTFSYGHPYFC*RRRQTLPNDGVGCS 1226 Score = 17.3 bits (33), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -1 Query: 69 EFNLGHCIFCGRC 81 +FN F GRC Sbjct: 3973 DFNFLFMFFLGRC 3935 Score = 16.5 bits (31), Expect = 4.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -2 Query: 69 EFNLGHC 75 +FNLG C Sbjct: 1392 DFNLGSC 1372 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCG_ECOLI P16433 Formate hydrogenlyase subunit 7 (FHL subunit 7) (Hydrogenase-3 component G) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -3 Query: 115 CGNSGGIFHD 124 CG+ G FH+ Sbjct: 4406 CGHQGVCFHE 4377 Score = 15.8 bits (29), Expect(2) = 8.7, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = -1 Query: 184 HGDMVQP 190 +GD++QP Sbjct: 6115 YGDLLQP 6095 Score = 15.0 bits (27), Expect(2) = 8.7, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 4/6 (66%) Frame = -1 Query: 140 VYIPGC 145 Y PGC Sbjct: 6136 FYFPGC 6119 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCH_ECOLI P0AEV7 Formate hydrogenlyase maturation protein hycH (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.63, Method: Composition-based stats. Identities = 15/48 (31%), Positives = 22/48 (45%) Frame = -1 Query: 6 VFSQLSRKFIDENDATPAEAQQVVYYSLAIGHHLGVIDCLEAALTCPW 53 V ++LSR I +ND + Q+V +SL C TCP+ Sbjct: 4729 VKNELSRIIIPQNDIN-TFSPQLVRHSLNT--------CSPHPNTCPY 4613 Score = 16.9 bits (32), Expect = 2.3, Method: Composition-based stats. Identities = 6/21 (28%), Positives = 10/21 (47%) Frame = -3 Query: 36 GHHLGVIDCLEAALTCPWDEY 56 G + VID PW+++ Sbjct: 3503 GDAIAVIDINTQCGLAPWNKF 3441 Score = 16.5 bits (31), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/27 (25%), Positives = 15/27 (55%) Frame = +2 Query: 90 PMLANAFDKARAAQTSQQQEWSTMLLS 116 PM+ + ++R + +Q++ LLS Sbjct: 6770 PMMGSCHRRSRPSNMLKQRKSPLSLLS 6850 Score = 15.4 bits (28), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -2 Query: 37 HHLGVID 43 HHLG+ D Sbjct: 2937 HHLGIED 2917 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYCI_ECOLI P0AEV9 Hydrogenase 3 maturation protease (3.4.23.-) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 10/49 (20%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Frame = -3 Query: 23 AEKCAAAPKGNWVVIDGGSAPENDIVAIRELRP-TRLLIVDATDMGLNP 70 A CA + W+++ + P + I+ + P T +L + + ++P Sbjct: 6425 ATSCAVS*SITWLIV---AIPPSFIIVLMT*EPLTAILFASSATVTVSP 6288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYDN_ECOLI P0AAK4 Electron transport protein hydN (175 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.7, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +2 Query: 108 VRPVIRNSGAGLNV 121 VR V + SG LNV Sbjct: 4844 VRLVSQLSGWELNV 4885 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFA_ECOLI P23481 Hydrogenase-4 component A (1.-.-.-) (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.26, Method: Compositional matrix adjust. Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 6/48 (12%) Frame = -1 Query: 11 WCTGCNTCLAACSDVH------KTQGLQQHPRLALAKTSTITAPVVCH 52 W CN + + D H + + Q HP L S++ V H Sbjct: 6601 WSNECNQAMKSYHDQHDP*W*RRGRVKQIHPPLPYRDHSSVLLRVHFH 6458 Score = 20.0 bits (40), Expect = 0.39, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 1/49 (2%) Frame = +1 Query: 149 CDFLPEGPACVRACPN-QALRLITGDSLQRQMKEKQRLAASWFANGGED 196 CD LPE + PN L+ TG+ L+R K + ++ G+D Sbjct: 16 CDLLPETVVRLAQIPNIIGLKEATGN-LERLSMIKPSVGDNFILLSGDD 159 Score = 16.2 bits (30), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 129 QHALLRW 135 +HA LRW Sbjct: 2946 RHATLRW 2966 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFB_ECOLI P23482 Hydrogenase-4 component B (1.-.-.-) (672 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.7, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 4/26 (15%) Frame = -1 Query: 293 YALAEQDIKRLL----AWSTVENVGI 314 YAL +Q + RLL A ++NV + Sbjct: 5974 YALLQQPVSRLLLSYGALLVLQNVSV 5897 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFC_ECOLI P77858 Hydrogenase-4 component C (1.-.-.-) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFD_ECOLI P77416 Hydrogenase-4 component D (1.-.-.-) (479 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFE_ECOLI P0AEW1 Hydrogenase-4 component E (1.-.-.-) (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = -3 Query: 111 FVVQPVKLPMATGLKPAL 128 FV+ P+ P KPAL Sbjct: 509 FVI*PLYFPSNQDSKPAL 456 Score = 16.9 bits (32), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 140 LCIVSQRN 147 LCI +QRN Sbjct: 2860 LCIGAQRN 2883 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFF_ECOLI P77437 Hydrogenase-4 component F (1.-.-.-) (526 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 10/12 (83%) Frame = +3 Query: 21 CFACRKRRLSAT 32 C++ RKR +++T Sbjct: 5490 CYSARKRNITST 5525 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 10/18 (55%) Frame = +1 Query: 184 VLVYANAASVMPQAEMAI 201 VLV A VMPQ AI Sbjct: 6754 VLVVAADDGVMPQTIEAI 6807 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFG_ECOLI P77329 Hydrogenase-4 component G (1.-.-.-) (555 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.91, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +3 Query: 388 DLRFDHPYADYGNI 401 DL ++HP +GN+ Sbjct: 1215 DLLYEHPTPSFGNV 1256 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFH_ECOLI P77423 Hydrogenase-4 component H (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.76, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 8/18 (44%) Frame = +1 Query: 147 REMLWAQASVCPECKQRA 164 R M W S C C RA Sbjct: 4615 RGMCWDAGSTCSSCV*RA 4668 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFI_ECOLI P77668 Hydrogenase-4 component I (1.-.-.-) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 68 VVSSPRHADILLF 80 VVS+P LLF Sbjct: 3271 VVSNPEFRGFLLF 3309 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFJ_ECOLI P77453 Hydrogenase-4 component J (1.-.-.-) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -3 Query: 62 WLALVEEEQARRKMLGVMT 80 +LALV ++ + LGV Sbjct: 635 FLALVH*DRLHHRSLGVYN 579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYFR_ECOLI P71229 Hydrogenase-4 transcriptional activator (670 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.0, Method: Compositional matrix adjust. Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 3/49 (6%) Frame = +1 Query: 161 TNAVLSHLDLDD---LIADVAREIHHFFGLASVSMVLGDHRKNEKFSLW 206 N VLS L DD ++ D E FGL + LGD + LW Sbjct: 2077 VNDVLSKL-FDDAGLILVDFKLE----FGLFENKITLGDEFSPDGCRLW 2208 Score = 18.9 bits (37), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +2 Query: 550 EALRQLMSWDW 560 E LRQ +SW W Sbjct: 6728 EVLRQQISWFW 6760 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYI_ECOLI P30147 Hydroxypyruvate isomerase (5.3.1.22) (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYPA_ECOLI P0A700 Protein hypA (116 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.3, Method: Composition-based stats. Identities = 4/5 (80%), Positives = 5/5 (100%) Frame = +3 Query: 27 TGVWL 31 TG+WL Sbjct: 2136 TGIWL 2150 Score = 15.8 bits (29), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -2 Query: 35 AFSCVETSSLAFCFD 49 +F C T L FCF Sbjct: 5790 SFLCTFTFCLLFCFS 5746 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYPB_ECOLI P0AAN3 Hydrogenase isoenzymes nickel incorporation protein hypB (290 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.43, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +3 Query: 66 GTHAPGMSQRRM 77 G+HA G QRR+ Sbjct: 3228 GSHAEGFFQRRI 3263 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 4/21 (19%) Frame = -1 Query: 216 TEGEDKPLK----YPHMFAAA 232 TE PL+ YPH++ A Sbjct: 2644 TELRRHPLQMKRPYPHLYLVA 2582 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYPC_ECOLI P0AAM3 Hydrogenase isoenzymes formation protein hypC (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.8, Method: Composition-based stats. Identities = 3/7 (42%), Positives = 6/7 (85%) Frame = -3 Query: 1 MCIGVPG 7 +C+G+P Sbjct: 1814 ICVGIPA 1794 Score = 14.6 bits (26), Expect = 6.7, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 75 FDVEPD 80 FD+ PD Sbjct: 911 FDLHPD 894 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYPD_ECOLI P24192 Hydrogenase isoenzymes formation protein hypD (373 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.0, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +2 Query: 148 ETTMPTTAITLQQAK 162 E MPT ITL+ A+ Sbjct: 4037 EVVMPTREITLEAAQ 4081 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = -1 Query: 321 ARCGEVLTGKCKPHQCPLFGNTCN 344 ++CG+ + G PLF T N Sbjct: 5125 SQCGQYILGTITQLLKPLFVKTIN 5054 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYPE_ECOLI P24193 Hydrogenase isoenzymes formation protein hypE (336 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.38, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = -3 Query: 60 YVIDPLFFPGGNIGKLAI 77 +VI PL+FP K A+ Sbjct: 509 FVI*PLYFPSNQDSKPAL 456 Score = 16.2 bits (30), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 8/19 (42%) Frame = +3 Query: 231 VHEFAAACGCGIELSEAAL 249 +H F +CG G A Sbjct: 6585 LHSFDQSCGRGSRRDHTAY 6641 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= HYPF_ECOLI P30131 Carbamoyltransferase hypF (2.1.3.-) (Carbamoyl phosphate-converting enzyme hypF) ([NiFe]-hydrogenase maturation factor hypF) (Hydrogenase maturation protein hypF) (750 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 7/16 (43%) Frame = -2 Query: 19 GVGFRPFVWQLAQQLN 34 G GFRPF + Sbjct: 6018 GYGFRPFTFIFCCHFT 5971 Score = 17.7 bits (34), Expect = 8.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +2 Query: 388 FKNVPPVLCLGADLKNTF 405 + VPP LCL ++ T Sbjct: 2618 LERVPPQLCLDLVVQATL 2671 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IAAA_ECOLI P37595 Isoaspartyl peptidase (3.4.19.5) (EcAIII) (Beta-aspartyl-peptidase) (Isoaspartyl dipeptidase) (Isoaspartyl peptidase subunit alpha) (Isoaspartyl peptidase subunit beta) (Precursor) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 9/22 (40%) Frame = +1 Query: 299 WGYAGDTPTTGIYREKGDTVAT 320 W + +YR K TV T Sbjct: 1591 WSHIEMQKLAELYRGKAKTVYT 1656 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IADA_ECOLI P39377 Isoaspartyl dipeptidase (3.4.19.-) (390 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IAP_ECOLI P10423 Alkaline phosphatase isozyme conversion protein (3.4.11.-) (Precursor) (345 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IBPA_ECOLI P0C054 Small heat shock protein ibpA (16 kDa heat shock protein A) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.47, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -2 Query: 7 SPLYRSAIGFDRLF 20 SPL + IGFD+ F Sbjct: 360 SPLNGNWIGFDK*F 319 Score = 18.5 bits (36), Expect = 0.70, Method: Composition-based stats. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -1 Query: 10 YRSAIGFDRLFNHL 23 YR ++ RLF+HL Sbjct: 2833 YRCSVLEARLFSHL 2792 Score = 18.1 bits (35), Expect = 1.0, Method: Composition-based stats. Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 2/24 (8%) Frame = -3 Query: 114 NGLLYIDLERVI--PEAKKPRRIE 135 N + I + RVI PE P R+E Sbjct: 2705 NNVANIAVIRVIKLPEPLDPNRVE 2634 Score = 15.0 bits (27), Expect = 8.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 18 RLFNHL 23 RLF+HL Sbjct: 5306 RLFHHL 5289 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IBPB_ECOLI P0C058 Small heat shock protein ibpB (16 kDa heat shock protein B) (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.027 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.027, Method: Compositional matrix adjust. Identities = 9/12 (75%), Positives = 9/12 (75%) Frame = -2 Query: 7 SPLMRQWIGFDK 18 SPL WIGFDK Sbjct: 360 SPLNGNWIGFDK 325 Score = 18.1 bits (35), Expect = 0.89, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 4 FDLSPLMRQWIG 15 FDL P R+W G Sbjct: 911 FDLHPDDRRWGG 876 Score = 16.9 bits (32), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 10/21 (47%) Frame = +1 Query: 120 IRNEPEPIAAQRIAISERPAL 140 RN+ + QRI +R + Sbjct: 1687 FRNDTSAMDGQRIQAFDRKGM 1749 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ICC_ECOLI P0AEW4 Protein icc (275 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.050 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.050, Method: Compositional matrix adjust. Identities = 10/17 (58%), Positives = 10/17 (58%) Frame = -3 Query: 187 DTVLAKFPHVKYLLCGH 203 D VL H KYL CGH Sbjct: 4448 DLVLQDVSHTKYL*CGH 4398 Score = 21.2 bits (43), Expect = 0.23, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = -3 Query: 89 VWLPGNHDFQPAMYSA 104 ++ P N D +PA++ A Sbjct: 494 LYFPSNQDSKPALFKA 447 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ICIA_ECOLI P0A8S1 Chromosome initiation inhibitor (OriC replication inhibitor) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 1/28 (3%) Frame = +1 Query: 257 LTPGLFQRRMLYWHRFAPES-RMMRKVT 283 L GLF+ ++ F+P+ R+ K T Sbjct: 2137 LEFGLFENKITLGDEFSPDGCRLWDKKT 2220 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ICLR_ECOLI P16528 Acetate operon repressor (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.60, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -1 Query: 94 SFLQSRNLLAIVHPIL 109 SFL R L + HP+L Sbjct: 1750 SFLSDRRLEYVDHPLL 1703 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -2 Query: 17 TAPATGQVQSLT 28 T+PA G SLT Sbjct: 2037 TSPAKGFTVSLT 2002 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IDH_ECOLI P08200 Isocitrate dehydrogenase [NADP] (IDH) (1.1.1.42) (Oxalosuccinate decarboxylase) (NADP(+)-specific ICDH) (IDP) (416 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +2 Query: 117 ALRQELDLYICLRPV 131 LRQ++ + LRP+ Sbjct: 6731 VLRQQISWFWLLRPM 6775 Score = 18.1 bits (35), Expect = 3.6, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = +2 Query: 254 GGELIDGGPWLKVKNPNTGKEI 275 GGE + G + N +TGK + Sbjct: 3353 GGEFVHVGTKINRDNFSTGKSL 3418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IDI_ECOLI Q46822 Isopentenyl-diphosphate Delta-isomerase (IPP isomerase) (5.3.3.2) (Isopentenyl pyrophosphate isomerase) (IPP:DMAPP isomerase) (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IDND_ECOLI P39346 L-idonate 5-dehydrogenase (1.1.1.264) (343 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IDNK_ECOLI P39208 Thermosensitive gluconokinase (2.7.1.12) (Gluconate kinase 1) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.4, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 9/20 (45%) Frame = +1 Query: 31 FIDGDDLHPAKNIDKMSQGI 50 + GDD I K QGI Sbjct: 142 LLSGDDATGFDFIQKGGQGI 201 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IDNO_ECOLI P0A9P9 Gluconate 5-dehydrogenase (1.1.1.69) (5-keto-D-gluconate 5-reductase) (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +2 Query: 73 IDAAVEHIEKDIGPIDVLV 91 ID +EH+E D VLV Sbjct: 4937 IDMFIEHLEIDEECATVLV 4993 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IDNR_ECOLI P39343 HTH-type transcriptional regulator idnR (L-idonate regulatory protein) (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -1 Query: 242 DGVFCTNDDIAMGALLLCR 260 DGV C+ + A++ CR Sbjct: 1243 DGVGCSYNKSG*SAIVTCR 1187 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = -2 Query: 53 RAPGMLLNAQSYTLGILIPS 72 R+PG + + S + +IPS Sbjct: 4404 RSPGRMFSRGSISSCPIIPS 4345 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = +1 Query: 193 TRDEQRYQGYC 203 T DEQR G C Sbjct: 3832 T*DEQRDSGCC 3864 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IDNT_ECOLI P39344 Gnt-II system L-idonate transporter (L-Ido transporter) (439 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IF1_ECOLI P69222 Translation initiation factor IF-1 (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +3 Query: 59 PYDLSKGRIVF 69 PYD G I+F Sbjct: 2676 PYDRYIGDIIF 2708 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IF2_ECOLI P0A705 Translation initiation factor IF-2 (890 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 446 e-129 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 446 bits (1147), Expect = e-129, Method: Compositional matrix adjust. Identities = 229/337 (67%), Positives = 246/337 (72%), Gaps = 3/337 (0%) Frame = +1 Query: 214 KWTDNAEPTEDSSDYHVTTSQHARQAXXXXXXXXXXXXXXXXXXXXXXXXXXXXH-AESX 272 KW + + +DYHVTTSQHAR A +ES Sbjct: 5998 KWPEPIAEQIELTDYHVTTSQHARAAEDENDAKVEGDRRSRSRGSKTTKQKKGNKLSESK 6177 Query: 273 XXXXXXXXXXXXXXXXXXXXSSLQQGFQKPAQAVNRDVVIGETITVGELANKMAVKGSQV 332 S+LQQ F KP VNRDV+IGET+TV ELANKMAVKGSQV Sbjct: 6178 ADREEARAVGRKSKRKP---STLQQSFNKPVAVVNRDVIIGETVTVAELANKMAVKGSQV 6348 Query: 333 IKAMMKLGAMATINQVIDQETAQLVAEEMGHKVILRRENELEEAVMSDRDTGAAAEP--R 390 IK MMKLG MATINQVIDQETAQLVAEEMGHKVILRRENELEEA+MSDRD G A E R Sbjct: 6349 IKTMMKLGGMATINQVIDQETAQLVAEEMGHKVILRRENELEEALMSDRDMGVAGESALR 6528 Query: 391 APVVTIMGHVDHGKTSLLDYIRSTKVASGEAGGITQHIGAYHVETENGMITFLDTPGHAA 450 APVVTIMGHVDHGKTSLLD IRSTKVA+GEAGGITQHIGAYHVETENGM+TFLDTPGHAA Sbjct: 6529 APVVTIMGHVDHGKTSLLDCIRSTKVAAGEAGGITQHIGAYHVETENGMVTFLDTPGHAA 6708 Query: 451 FTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHXXXXXXXXXXXXNKIDKPEADPDRV 510 FTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQH NKIDKP ADP+R+ Sbjct: 6709 FTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAKVPVVVVINKIDKPNADPERL 6888 Query: 511 KNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDA 547 + ELSQ+GILPEEWGG+S FVHVSAK GTGID+LL+A Sbjct: 6889 RTELSQHGILPEEWGGDSPFVHVSAKKGTGIDDLLNA 6999 Score = 124 bits (310), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 61/93 (65%), Positives = 77/93 (82%), Gaps = 1/93 (1%) Frame = +1 Query: 1 MTDVTIKTLAAERQTSVERLVQQFADAGIRKSADDSVSAQEKQTLIDHL-NQKNSGPDKL 59 MTDVTIK LAAE TSV+RL+QQFADAG++KS SV+ QEK+ L+ HL ++ P+KL Sbjct: 5383 MTDVTIKLLAAEISTSVDRLIQQFADAGLKKSETSSVTQQEKEILLAHLKHEPGQVPNKL 5562 Query: 60 TLQRKTRSTLNIPGTGGKSKSVQIEVRKKRTFV 92 TLQRK RSTLN+P +GGKSKSVQIE+R+KRT++ Sbjct: 5563 TLQRKIRSTLNVPSSGGKSKSVQIEIRRKRTYI 5661 Score = 18.1 bits (35), Expect = 7.8, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 17/31 (54%) Frame = +1 Query: 58 KLTLQRKTRSTLNIPGTGGKSKSVQIEVRKK 88 KLT Q+++ T +SV+ EVR+K Sbjct: 5842 KLTTQQQSDKTRREAEAAELKRSVEREVRRK 5934 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IF3_ECOLI P0A707 Translation initiation factor IF-3 (Translation initiation factor IF-3, N-terminally processed) (Translation initiation factor IF-3S) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IGAA_ECOLI P45800 Putative membrane protein igaA homolog (711 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.87 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.87, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 8/8 (100%) Frame = +2 Query: 516 NSKDWDAL 523 NS+DWDAL Sbjct: 1343 NSRDWDAL 1366 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IHFA_ECOLI P0A6X7 Integration host factor subunit alpha (IHF-alpha) (99 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IHFB_ECOLI P0A6Y1 Integration host factor subunit beta (IHF-beta) (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.2, Method: Composition-based stats. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 84 KELRDRA 90 +ELRDRA Sbjct: 5081 QELRDRA 5101 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVB_ECOLI P08142 Acetolactate synthase isozyme 1 large subunit (AHAS-I) (2.2.1.6) (Acetohydroxy-acid synthase I large subunit) (ALS-I) (562 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVC_ECOLI P05793 Ketol-acid reductoisomerase (1.1.1.86) (Acetohydroxy-acid isomeroreductase) (Alpha-keto-beta-hydroxylacil reductoisomerase) (491 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -1 Query: 320 WANDDKKLLTWREE 333 + N+D+ L+WR Sbjct: 4771 FVNNDRSYLSWRHS 4730 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVD_ECOLI P05791 Dihydroxy-acid dehydratase (DAD) (4.2.1.9) (616 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.71, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 3/31 (9%) Frame = +1 Query: 408 CIRSLEHAYSKDGGLAVLYGNF---AENGCI 435 CIRS + A + GG+ G + ENG + Sbjct: 6586 CIRSTKVAAGEAGGITQHIGAYHVETENGMV 6678 Score = 19.6 bits (39), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = +3 Query: 426 YGNFAENGCIVKTAGV 441 YG F +GC++ + + Sbjct: 2604 YGRFIWSGCLLNSVWI 2651 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVE_ECOLI P0AB80 Branched-chain-amino-acid aminotransferase (BCAT) (2.6.1.42) (Transaminase B) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -1 Query: 32 YGTSVFEGIRCYDSHKGP 49 + T F+G+ CY + P Sbjct: 2773 FPTHCFDGVACYSYYLRP 2720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVG_ECOLI P00892 Acetolactate synthase isozyme 2 large subunit (AHAS-II) (2.2.1.6) (Acetohydroxy-acid synthase II large subunit) (ALS-II) (548 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = -1 Query: 277 VTGKLNTFAPHASVIHMDID 296 V LNT +PH + ID Sbjct: 4663 VRHSLNTCSPHPNTCPYRID 4604 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVH_ECOLI P00894 Acetolactate synthase isozyme 3 small subunit (2.2.1.6) (Acetohydroxy-acid synthase III small subunit) (AHAS-III) (ALS-III) (163 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 7/17 (41%) Frame = -2 Query: 19 VIGLFSQRGYNIESLTV 35 VIG F GY T Sbjct: 6042 VIGQFDLFGYGFRPFTF 5992 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVI_ECOLI P00893 Acetolactate synthase isozyme 3 large subunit (2.2.1.6) (AHAS-III) (Acetohydroxy-acid synthase III large subunit) (ALS-III) (574 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = -1 Query: 182 MRSYNPTTTGHKGQ 195 + S+ PT+ H+G+ Sbjct: 2224 LTSFYPTSDSHRGK 2183 Score = 17.3 bits (33), Expect = 7.7, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -3 Query: 515 GIQISHPHELESKLSE 530 G+Q H H L S LS Sbjct: 971 GLQRGHLHRLGSILSN 924 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVM_ECOLI P0ADG1 Acetolactate synthase isozyme 2 small subunit (2.2.1.6) (Acetohydroxy-acid synthase II small subunit) (AHAS-II) (ALS-II) (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.77, Method: Compositional matrix adjust. Identities = 13/52 (25%), Positives = 25/52 (48%) Frame = -3 Query: 8 VSARFNPETLERVLRVVRHRGFHVCSMNMAAASDAQNINIELTVASPRSVDL 59 VSA NP L+ H+ ++ +A+ +++ I+ + P SV+L Sbjct: 392 VSAVINPSRLQA----------HLTAIGLASINNSLCSGIKRSFKRPASVNL 267 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVN_ECOLI P0ADF8 Acetolactate synthase isozyme 1 small subunit (2.2.1.6) (Acetohydroxy-acid synthase I small subunit) (AHAS-I) (ALS-I) (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.89, Method: Composition-based stats. Identities = 9/28 (32%), Positives = 17/28 (60%) Frame = +2 Query: 66 ISQIDKLEDVVKVQRNQSDPTMFNKIAV 93 + +ID E++++++ DP KIAV Sbjct: 4508 VPEID--EELIEIKAAIRDPASRAKIAV 4585 Score = 16.2 bits (30), Expect = 2.3, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -3 Query: 40 LCLPIQ 45 LC PIQ Sbjct: 2879 LCAPIQ 2862 Score = 15.4 bits (28), Expect = 4.3, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 86 TMFNKIAVFF 95 TM+ + VFF Sbjct: 2515 TMYVTLLVFF 2544 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVX_ECOLI C1P619 Uncharacterized protein ilvX (16 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ILVY_ECOLI P05827 HTH-type transcriptional regulator ilvY (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.67, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 10/23 (43%) Frame = +1 Query: 177 VRNQVSVEKPDWSTVPFIMADQG 199 R + EK DW+ PF G Sbjct: 3289 FRGFLLFEKNDWAIRPFFFMPWG 3357 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +3 Query: 290 WKILPN 295 WKILPN Sbjct: 5238 WKILPN 5255 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IMDH_ECOLI P0ADG7 Inosine-5'-monophosphate dehydrogenase (IMP dehydrogenase) (IMPDH) (IMPD) (1.1.1.205) (488 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 9/9 (100%) Frame = +1 Query: 380 RSYKSYRGM 388 ++Y+SYRGM Sbjct: 4597 QAYRSYRGM 4623 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INAA_ECOLI P27294 Protein inaA (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INF7_ECOLI Q9JMT3 Transposase insF for insertion sequence IS3fB (288 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +3 Query: 263 CDYNRWRRHSWCG 275 C NR+R CG Sbjct: 6732 CSGNRYRGFGCCG 6770 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 122 DFYASGPNQK 131 +YA PNQ+ Sbjct: 5364 SYYALSPNQQ 5335 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INGK_ECOLI P0AEW6 Inosine-guanosine kinase (2.7.1.73) (434 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 14/23 (60%) Frame = +1 Query: 386 FTWLTYSSLAQVCKYANRVSYQV 408 F W + + LAQ+ K +SYQV Sbjct: 2023 FGWASEAHLAQMKK----LSYQV 2079 Score = 17.3 bits (33), Expect = 5.6, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 9/15 (60%) Frame = +3 Query: 141 YLQGVDGPIGRCFTL 155 YLQ G IGR TL Sbjct: 2916 YLQYRGGEIGRHATL 2960 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSA1_ECOLI P0C650 Insertion element IS1 1/5/6 protein insA (IS1a/IS1e/IS1f) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSA2_ECOLI P0C651 Insertion element IS1 2/3/4 protein insA (IS1b/IS1c/IS1d) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSA7_ECOLI P19767 Insertion element IS1 7 protein insA (IS1f) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 9.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 9.7, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = -2 Query: 32 CSPCR 36 C PCR Sbjct: 6621 CFPCR 6607 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSB1_ECOLI P03830 Insertion element IS1 1/5/6 protein insB (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 54 SRQRWLFY 61 SRQ +LFY Sbjct: 5853 SRQFFLFY 5830 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSB2_ECOLI Q47302 Insertion element IS1 2/3 protein insB (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = -2 Query: 54 SRQRWLFYAYDRLRKTV 70 SRQ +LF Y+RL V Sbjct: 5853 SRQFFLF--YNRLTFCV 5809 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSB4_ECOLI P57998 Insertion element IS1 4 protein insB (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.2, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = -2 Query: 54 SRQRWLFYAYDRLRKTV 70 SRQ +LF Y+RL V Sbjct: 5853 SRQFFLF--YNRLTFCV 5809 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSC_ECOLI P0C5W2 Transposase insC for insertion element IS2A/D/F/H/I/K (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSD_ECOLI P0C5W4 Transposase insD for insertion element IS2A/D/F/H/I/K (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.67, Method: Compositional matrix adjust. Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 3/31 (9%) Frame = -3 Query: 14 VSLVSRCLRVSRAQLHVIL---RRTDDWMDG 41 V LV+ CL V + L VIL R+ M G Sbjct: 752 VELVAECLTVCQRHLAVILAQYRKFHAVMAG 660 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 2/33 (6%) Frame = +1 Query: 270 WHPHSALGYRSPREYLRQRA--CNGLSDNRCLE 300 W P +R R Y++ C G RC+E Sbjct: 1423 WQP**RAIHRF*RAYIKSTTK*CAGCGATRCIE 1521 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -1 Query: 48 DDTDVLLRIH 57 D + VLLR+H Sbjct: 6493 DHSSVLLRVH 6464 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 59 VIGELPTYGY 68 VIG+ +GY Sbjct: 6042 VIGQFDLFGY 6013 Score = 16.2 bits (30), Expect = 8.6, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -1 Query: 39 MDGRRSRHTDDTDVL 53 ++ RRSR D+T L Sbjct: 3622 VNNRRSRPGDETSKL 3578 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSE_ECOLI P0ADH3 Transposase insE for insertion sequence IS3A/B/C/D/E/fA/fB (102 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSF_ECOLI P05822 Transposase insF for insertion sequence IS3A/B/C/D/E/fA (288 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +3 Query: 263 CDYNRWRRHSWCG 275 C NR+R CG Sbjct: 6732 CSGNRYRGFGCCG 6770 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 122 DFYASGPNQK 131 +YA PNQ+ Sbjct: 5364 SYYALSPNQQ 5335 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSG_ECOLI P03835 Transposase insG for insertion sequence element IS4 (442 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = +2 Query: 217 LLNAWSLAGEHRHWMIPLRK 236 ++ WS H+ WM+ + K Sbjct: 1670 IIWCWSSVTIHQQWMVNVFK 1729 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 13/21 (61%) Frame = +3 Query: 296 MRFPGGEMGDLYSHRWEIELG 316 +++ GGE+G + RW +G Sbjct: 2919 LQYRGGEIGRHATLRW*CSIG 2981 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 12/45 (26%), Positives = 21/45 (46%) Frame = +1 Query: 147 AAFPRQTHAGNPALYPQVKMVCQMELTSHLLTAAAFGTMKNSENE 191 A R+ A N +P+ + Q+ELT + +T + EN+ Sbjct: 5959 AEEARKMAAENEGKWPE-PIAEQIELTDYHVTTSQHARAAEDEND 6090 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 296 MRFPGGEMGDL 306 FPG + GDL Sbjct: 6136 FYFPGCDYGDL 6104 Score = 18.1 bits (35), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +1 Query: 359 KMAEHLKGYWP 369 KMA +G WP Sbjct: 5974 KMAAENEGKWP 6006 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSH5_ECOLI P76071 Transposase insH for insertion sequence element IS5Y (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSH_ECOLI P03837 Transposase insH for insertion sequence element IS5 (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -2 Query: 321 LANLFRADQMIRQWER 336 L++ FRA+ + W R Sbjct: 5142 LSSFFRANVVSTFWAR 5095 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSI_ECOLI P37246 Transposase insI for insertion sequence element IS30B/C/D (383 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 1/38 (2%) Frame = +2 Query: 239 VSGTKNSHIATLVDRKSRYTIILRL-RGKDSVSVNQAL 275 VSG + T R R+ + LRL R + VS++ L Sbjct: 2297 VSGFR*RPFLTTYQRIKRFKVKLRLHRLQAFVSIHSVL 2410 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSJ_ECOLI P19768 Insertion element IS150 uncharacterized 19.7 kDa protein (ORFA) (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 14/27 (51%) Frame = -1 Query: 9 EKRLEVVNHYFTTDDGYRIISARFGVP 35 ++RLE V+H ++ R+G P Sbjct: 1738 DRRLEYVDH--------PLLMYRYGTP 1682 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSK_ECOLI P19769 Putative transposase insK for insertion sequence element IS150 (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.3, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 3/21 (14%) Frame = +1 Query: 97 YRSYRG---EVGQTAPNVLQR 114 YRSYRG + G T + + R Sbjct: 4603 YRSYRGMCWDAGSTCSSCV*R 4665 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSL_ECOLI P08409 Putative transposase insL for insertion sequence element IS186A/B/C (370 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = -2 Query: 339 IFANLLAAFLIDDII 353 F+N L FLI++++ Sbjct: 6432 FFSNQLRCFLINNLV 6388 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSN1_ECOLI P75679 Transposase insN for insertion sequence element IS911A (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 8.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +2 Query: 106 QRNSYVKTW 114 QRN +K W Sbjct: 6410 QRNWLLKKW 6436 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSN2_ECOLI P39212 Transposase insN for insertion sequence element IS911B (100 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.6, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +2 Query: 5 PQNNTGAPMKK 15 PQ+ G P+ K Sbjct: 3785 PQSKPGTPLLK 3817 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSO1_ECOLI P75680 Putative transposase insO for insertion sequence element IS911A (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.68, Method: Composition-based stats. Identities = 9/26 (34%), Positives = 14/26 (53%) Frame = +1 Query: 3 TLCHVFGVHRSSYKYWKNRPEKPDGR 28 T+C+VFG R + + P+GR Sbjct: 3052 TICYVFG--RGMEQLGSSSGS*PEGR 3123 Score = 16.2 bits (30), Expect = 3.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +3 Query: 60 GYQMGRWLA 68 G+Q G WL Sbjct: 2127 GFQTGIWLV 2153 Score = 15.4 bits (28), Expect = 6.5, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 16/28 (57%) Frame = -1 Query: 1 MATLCHVFGVHRSSYKYWKNRPEKPDGR 28 ++ L HV G RSS +RP++P R Sbjct: 6829 LSLL*HV-GWPRSSVA*PHHRPQQPKPR 6749 Score = 14.6 bits (26), Expect = 9.8, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -3 Query: 129 HGCLNEP 135 +GC N P Sbjct: 1433 YGCQNHP 1413 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INSO2_ECOLI Q47718 Putative transposase insO for insertion sequence element IS911B (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +3 Query: 59 GYQMGRWLA 67 G+Q G WL Sbjct: 2127 GFQTGIWLV 2153 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTA_ECOLI P32053 Prophage CP4-57 integrase (413 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = +1 Query: 157 KAVQPVQARGALETVRRLCQRINE 180 + + V A A + LCQR+ E Sbjct: 193 QGIISVTANVAAGGMTELCQRVAE 264 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +1 Query: 316 MNSQTVNAALKRAGL 330 +N + V ALK AGL Sbjct: 424 VNQKRVEDALKSAGL 468 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTB_ECOLI P39347 Putative prophage P4 integrase (Int(P4)) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 12/16 (75%) Frame = +2 Query: 168 VASCNRQHRPALELKR 183 + SC+R+ RP+ LK+ Sbjct: 6776 MGSCHRRSRPSNMLKQ 6823 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/32 (21%), Positives = 15/32 (46%) Frame = +1 Query: 338 ERQMSHMARNSVRAAYIHKAEHLEERRLMLQW 369 E + + R + R +HK +E + ++W Sbjct: 262 EGKFTEAGRLNERLMPLHKELFIEANPIAVKW 357 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 325 SLVESGLWSRDAVER 339 SLV + + +RDA R Sbjct: 4596 SLVLTAILARDAGSR 4552 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTD_ECOLI P24218 Prophage DLP12 integrase (Prophage QSR' integrase) (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 5/29 (17%) Frame = +2 Query: 30 DKRQAQELHDKRKAELWRV-----EKLGD 53 DK++ QEL D+ + L + E GD Sbjct: 5066 DKKRLQELRDRAQNVLTTLALKKEESFGD 5152 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTE_ECOLI P75969 Prophage lambda integrase (Int(Lambda)) (Prophage e14 integrase) (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 11/16 (68%) Frame = -2 Query: 301 VKANTLTMNFSKARDL 316 ++ ++MN+ + RDL Sbjct: 3039 IQKQAISMNWYRGRDL 2992 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTF_ECOLI P71298 Putative prophage CP4-6 integrase (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +3 Query: 437 LDLLRKWHEKI 447 L +LRK+H K+ Sbjct: 681 LTILRKYHSKV 713 Score = 16.9 bits (32), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 457 ITIKNNV 463 +TIKNNV Sbjct: 2717 LTIKNNV 2697 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTG_ECOLI P76323 Putative lambdoid prophage defective integrase (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTM_ECOLI P56979 Probable site-specific recombinase (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 19/37 (51%) Frame = -3 Query: 111 PKDEVRLVPLTDISYVRQMESWMITTRPRRREPLWAV 147 P ++ L+ LT V +++++ EP+W+V Sbjct: 5204 PYHDLNLLNLTSRQRVCYHQNFLLFL-----EPMWSV 5109 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTQ_ECOLI P76168 Putative lambdoid prophage Qin defective integrase (Fragment) (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = -3 Query: 289 DHFTVDSI 296 DHF++DS+ Sbjct: 3737 DHFSIDSL 3714 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTR_ECOLI P76056 Putative lambdoid prophage Rac integrase (411 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.74, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +3 Query: 326 KQKPYYSVSSLGARWNAAVKRAG 348 + + Y+S G+RWN G Sbjct: 189 RARDYFSNGQCGSRWNDGALSTG 257 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 9/13 (69%), Positives = 10/13 (76%) Frame = -2 Query: 266 KTNAGIRTVTLLQ 278 K +A IRT TLLQ Sbjct: 2619 K*SAHIRTFTLLQ 2581 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 352 RNPYHTR 358 RNP+H R Sbjct: 3882 RNPFHVR 3902 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTS_ECOLI P37326 Putative prophage CPS-53 integrase (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = -2 Query: 28 YVPVSGKKVWQLRY 41 Y P+ K +W L + Sbjct: 5580 YFPLQRKFIWHLTW 5539 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -1 Query: 200 LPADQIPAFN 209 LP D+ P+F+ Sbjct: 259 LPVDKAPSFH 230 Score = 16.5 bits (31), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -3 Query: 127 IIGGLEIQDIEPMQLL 142 IIG L +QD+ + L Sbjct: 4457 IIGDLVLQDVSHTKYL 4410 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= INTZ_ECOLI P76542 Putative prophage CPZ-55 integrase (402 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 13/22 (59%) Frame = +1 Query: 105 FKKVAEDWFATRVGGWSESYAK 126 +K+ +D F +GG E+Y + Sbjct: 2221 LEKMDKDRFRGNLGGVIEAYEQ 2286 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IPYR_ECOLI P0A7A9 Inorganic pyrophosphatase (3.6.1.1) (Pyrophosphate phospho-hydrolase) (PPase) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -1 Query: 47 STAMFYPCN 55 STA+ PC+ Sbjct: 3724 STALMIPCH 3698 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IRAD_ECOLI P39375 Anti-adapter protein iraD (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.50, Method: Composition-based stats. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = -3 Query: 21 LRKSVCSDLL 30 LR S+C+DLL Sbjct: 5645 LRISICTDLL 5616 Score = 16.9 bits (32), Expect = 1.9, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 13/26 (50%) Frame = -2 Query: 19 SSLRKSVCSDLLTLFNSPHSALPSLL 44 + LR S C + N+P LPS L Sbjct: 249 TKLRHSTCCHIGRY*NNP---LPSFL 181 Score = 16.5 bits (31), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 1/23 (4%) Frame = -3 Query: 49 PEWQVHNPSDK-HLQSWYCRQLR 70 P W VH+ D L++ +C+ + Sbjct: 5123 PMWSVHSGHDHAALEASFCQNYQ 5055 Score = 15.0 bits (27), Expect = 6.8, Method: Compositional matrix adjust. Identities = 9/36 (25%), Positives = 16/36 (44%) Frame = -1 Query: 26 CSDLLTLFNSPHSALPSLLVSGMPEWQVHNPSDKHL 61 SDL + + + A PS + + H+P +L Sbjct: 3127 TSDLRVMSPTSYQAAPSRVRKRSK*YVDHHPKASYL 3020 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IRAM_ECOLI P75987 Anti-adapter protein iraM (Enhancing lycopene biosynthesis protein 1) (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.3, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 28 IIWYQSTIFL 37 ++W QST L Sbjct: 6371 VVWQQSTRLL 6400 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IRAP_ECOLI P0AAN9 Anti-adapter protein iraP (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.004 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.4 bits (54), Expect = 0.004, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 13/17 (76%) Frame = +2 Query: 50 DQVEGALYEVKPDASIP 66 D++ G LYE++P+A P Sbjct: 4400 DRIRGILYEIRPEARGP 4450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISCA_ECOLI P0AAC8 Iron-binding protein iscA (Iron-sulfur cluster assembly protein) (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = +1 Query: 31 RTSGCSGMAYVLEFVDEPT 49 R+SGC A+ EP+ Sbjct: 889 RSSGCKSNAHYRLDKMEPS 945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISCR_ECOLI P0AGK8 HTH-type transcriptional regulator iscR (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +3 Query: 36 GISLSYLEQLFSRL 49 G+SLS LEQ + + Sbjct: 3354 GVSLSTLEQKLTEI 3395 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISCS_ECOLI P0A6B7 Cysteine desulfurase (2.8.1.7) (ThiI transpersulfidase) (NifS protein homolog) (404 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +3 Query: 91 QKKGKHIIT 99 QKK KH T Sbjct: 6216 QKKAKHFTT 6242 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISCX_ECOLI P0C0L9 Protein iscX (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.4, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = +1 Query: 20 PDLDPKTVRFTDMHQ 34 P+ DP+ +R T++ Q Sbjct: 6865 PNADPERLR-TELSQ 6906 Score = 14.2 bits (25), Expect = 5.6, Method: Compositional matrix adjust. Identities = 7/27 (25%), Positives = 15/27 (55%) Frame = +2 Query: 36 ICDLEDFDDDPQASNEKILEAILLVWL 62 + D+E+ DD+ + + I+ A + W Sbjct: 5270 LADIEELDDEK--AGKLIMAARNICWF 5344 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPA_ECOLI P22939 Geranyltranstransferase (2.5.1.10) (Farnesyl-diphosphate synthase) (FPP synthase) (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.3, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 17 ALSRFIAPLPF 27 ALSR P+PF Sbjct: 6998 ALSRSSIPVPF 6966 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPB_ECOLI P0AD57 Octaprenyl-diphosphate synthase (2.5.1.-) (Octaprenyl pyrophosphate synthetase) (OPP synthetase) (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 4/48 (8%) Frame = +3 Query: 166 VIYSKTARL-FEAAAQCSGILAGCTPEEEKGL---QDYGRYLGTAFQL 209 V Y +A L E C L +P E+ L +DY YLG L Sbjct: 3522 VSYQVSAVLDVEEPITCPYNLEVSSPGLERLLFTAEDYTDYLGERINL 3665 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPD_ECOLI Q46893 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (2.7.7.60) (4-diphosphocytidyl-2C-methyl-D-erythritol synthase) (MEP cytidylyltransferase) (MCT) (CDP-ME synthetase) (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -3 Query: 197 YCGFHPQL 204 YCGF+ L Sbjct: 1136 YCGFYLSL 1113 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPE_ECOLI P62615 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (CMK) (2.7.1.148) (4-(cytidine-5'-diphospho)-2-C-methyl-D-erythritol kinase) (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.34, Method: Compositional matrix adjust. Identities = 15/55 (27%), Positives = 24/55 (43%) Frame = -3 Query: 33 QFLDYGDTISIELRDDGDIRLLTPVEGVEHEDNLIVRAARLLMKTAADSGRLPTG 87 QFL + + S+ L ++ + VEG+ H L+ + L A S L G Sbjct: 3968 QFLVHVFSWSLSLMQFLMLQKSSHVEGISH*KRLLQQPESLCSS*VASSKFLKVG 3804 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 17/24 (70%), Gaps = 1/24 (4%) Frame = +2 Query: 120 HLWQCGL-SMDELAEMGLTLGADV 142 L CG+ ++++LAE G++ AD+ Sbjct: 5210 KLAACGVCTLEDLAEQGVSDLADI 5281 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPF_ECOLI P62617 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (MECPS) (MECDP-synthase) (4.6.1.12) (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +1 Query: 6 GFDVHAFGGEGPIII 20 GFD GG+G I + Sbjct: 166 GFDFIQKGGQGIISV 210 Score = 15.8 bits (29), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = +1 Query: 5 HGFDVHAFGGEGPII 19 HG +GG+ P + Sbjct: 6907 HGILPEEWGGDSPFV 6951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPG_ECOLI P62620 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (1.17.7.1) (1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase) (Protein gcpE) (Protein E) (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.96 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.96, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 12/27 (44%) Frame = +2 Query: 108 NPGNIGNEERIRMVVDCARDKNIPIRI 134 NP + +I D RDK I I I Sbjct: 3131 NPAHATTSRKIFFKYDI*RDKLISILI 3211 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -1 Query: 170 RLNFDQFKVSV 180 RLNFDQ V+ Sbjct: 4546 RLNFDQLFVNF 4514 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPH_ECOLI P62623 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (1.17.1.2) (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ISPZ_ECOLI P0A710 Probable intracellular septation protein (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.74, Method: Compositional matrix adjust. Identities = 12/37 (32%), Positives = 18/37 (48%) Frame = -1 Query: 87 GALLVSQWVMKKPLIQRMLGKELTLPQPVWSKLNLAW 123 GALLV Q V +PL+ + ++S L A+ Sbjct: 5929 GALLVLQNVSVQPLLPHGGSCHFVVESSIFSFLQSAY 5819 Score = 16.2 bits (30), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 12/22 (54%) Frame = +2 Query: 75 KWKVTVIYALFAGALLVSQWVM 96 +W+V ++YA + WVM Sbjct: 6503 EWRVNLLYAPPSSP----SWVM 6556 Score = 15.8 bits (29), Expect = 6.2, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 12/29 (41%) Frame = -1 Query: 121 LAWAVFFILCGLANIYIAFWLPQNIWVNF 149 L W F I G N F P+ +NF Sbjct: 3901 LTWKGFLIRNGFYNSQNLFVHPKLPRLNF 3815 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= IVY_ECOLI P0AD59 Inhibitor of vertebrate lysozyme (Precursor) (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +3 Query: 53 GHKLP 57 GHKLP Sbjct: 843 GHKLP 857 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 22/78 (28%), Positives = 30/78 (38%), Gaps = 14/78 (17%) Frame = -3 Query: 47 FNQMVQGHKLPA---------WVMKGGTYTPA-QTV----TLGDETYQVMSACKPHDCGS 92 F + GH+LP V++ G A Q V +GD Q +S K CG Sbjct: 4577 F*HVTLGHELPP*FRSTLRQFLVLQCGKVQSAFQDVNG**IIGDLVLQDVSHTKYL*CGH 4398 Query: 93 QRIAVMWSEKSNQMTGLF 110 Q V + E + LF Sbjct: 4397 Q--GVCFHEAAYPPVQLF 4350 Score = 15.0 bits (27), Expect = 9.8, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 12/30 (40%) Frame = +2 Query: 68 PAQTVTLGDETYQVMSACKPHDCGSQRIAV 97 PAQ V +V S D + IAV Sbjct: 4709 PAQFVLNAMAPAEVASIVVDEDAKTMNIAV 4798 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= K1PF_ECOLI P0AEW9 1-phosphofructokinase (2.7.1.56) (Fructose 1-phosphate kinase) (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= K6PF1_ECOLI P0A796 6-phosphofructokinase isozyme 1 (2.7.1.11) (6-phosphofructokinase isozyme I) (Phosphofructokinase 1) (Phosphohexokinase 1) (320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= K6PF2_ECOLI P06999 6-phosphofructokinase isozyme 2 (Phosphofructokinase-2) (2.7.1.11) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = +3 Query: 147 EKLTQLISAAQK 158 +KLT++ISA K Sbjct: 3378 QKLTEIISAPVK 3413 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KAD_ECOLI P69441 Adenylate kinase (AK) (2.7.4.3) (ATP-AMP transphosphorylase) (214 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 12/17 (70%) Frame = +3 Query: 105 YVLEFDVPDELIVDRIV 121 YVL+ +VP+ L+ ++ Sbjct: 4428 YVLKHEVPNYLLAVHVL 4478 Score = 15.8 bits (29), Expect = 7.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 78 RNGFLLDGFPRTI 90 R+ LLD RTI Sbjct: 3019 RDSLLLDDDQRTI 3057 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KATG_ECOLI P13029 Catalase-peroxidase (CP) (1.11.1.6) (1.11.1.7) (Peroxidase/catalase) (Hydroperoxidase I) (HPI) (726 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = -2 Query: 333 LFKYEWVQTRSPA 345 LFK EW+ T++ + Sbjct: 2415 LFKTEWILTKACS 2377 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KBAY_ECOLI P0AB74 D-tagatose-1,6-bisphosphate aldolase subunit kbaY (TagBP aldolase) (TBPA) (4.1.2.40) (Tagatose-bisphosphate aldolase) (D-tagatose-bisphosphate aldolase class II) (Ketose 1,6-bisphosphate aldolase class II) (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = +2 Query: 153 FLTDPQEAKRF 163 FLT Q KRF Sbjct: 2321 FLTTYQRIKRF 2353 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = -2 Query: 245 AWFAENPQGNDPRYY 259 AW + N PR++ Sbjct: 6231 AWLSFAFTANSPRFF 6187 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KBAZ_ECOLI P0C8K0 D-tagatose-1,6-bisphosphate aldolase subunit kbaZ (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 13/26 (50%) Frame = -3 Query: 267 QTPQSLRQLVIDHFAILKVGPALTFA 292 Q P+SL + LKVG + FA Sbjct: 3863 QQPESLCSS*VASSKFLKVGCPVCFA 3786 Score = 16.9 bits (32), Expect = 8.2, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 17/32 (53%) Frame = -3 Query: 92 LGPNRWQNLPAAQAMANADDLIKSYVAAGFKK 123 + P+R Q A +A+ ++ + S + FK+ Sbjct: 380 INPSRLQAHLTAIGLASINNSLCSGIKRSFKR 285 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KBL_ECOLI P0AB77 2-amino-3-ketobutyrate coenzyme A ligase (AKB ligase) (2.3.1.29) (Glycine acetyltransferase) (398 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.9, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 8/12 (66%) Frame = +2 Query: 253 YTAARKEVVEWL 264 + + KE++ WL Sbjct: 2861 FVSEHKEILNWL 2896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KCH_ECOLI P31069 Putative potassium channel protein (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.41, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 12/20 (60%) Frame = +1 Query: 241 HRKDHFIVCGHSILAINTIL 260 H K+HF+ CG I I T + Sbjct: 2464 HNKEHFL-CGDPIGRIGTTM 2520 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = +1 Query: 10 TATNLWVTLRHD 21 TA W T+RH Sbjct: 703 TARCRWQTVRHS 738 Score = 16.9 bits (32), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 4 WATFKQTATN 13 W T + +ATN Sbjct: 718 WQTVRHSATN 747 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KCY_ECOLI P0A6I0 Cytidylate kinase (CK) (2.7.4.14) (Cytidine monophosphate kinase) (CMP kinase) (Protein mssA) (p25) (227 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDGK_ECOLI P37647 2-dehydro-3-deoxygluconokinase (2.7.1.45) (2-keto-3-deoxygluconokinase) (3-deoxy-2-oxo-D-gluconate kinase) (KDG kinase) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +3 Query: 225 VVVKRGADSCLV 236 V+ KRG SC++ Sbjct: 5061 VLTKRGFKSCVI 5096 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 10/14 (71%), Gaps = 1/14 (7%) Frame = +1 Query: 234 CLVSIAGEG-LVDV 246 C++++AG + DV Sbjct: 5353 CVITVAGRNSMTDV 5394 Score = 16.5 bits (31), Expect = 7.4, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 1/25 (4%) Frame = +1 Query: 1 MSKKIAVIG-ECMIELSEKGADVKR 24 + K++ +I EC+I G+ VKR Sbjct: 1843 LVKRLEMIPIECVIRNRTAGSLVKR 1917 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDGL_ECOLI P0ABN1 Diacylglycerol kinase (DAGK) (2.7.1.107) (Diglyceride kinase) (DGK) (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDGR_ECOLI P76268 Transcriptional regulator kdgR (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.44, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 13/27 (48%) Frame = +1 Query: 21 GILQALGEEREIGITELSQRVMMSKST 47 GI+ G+TEL QRV K T Sbjct: 196 GIISVTANVAAGGMTELCQRVAEGKFT 276 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDGT_ECOLI P0A712 2-keto-3-deoxygluconate permease (KDG permease) (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.34, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 13/34 (38%) Frame = +1 Query: 43 MITGTVPILAVWFFCMGASIKLSATGTVLRKSGT 76 ITG P + W ASI +R S T Sbjct: 643 CITGDNPAITAWNLRYCASITARCRWQTVRHSAT 744 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +3 Query: 1 MQIKRSI 7 MQIKRS+ Sbjct: 900 MQIKRSL 920 Score = 16.2 bits (30), Expect = 9.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 183 ALGNLDPELR 192 ALG DP+L+ Sbjct: 1361 ALGAQDPKLK 1390 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDPD_ECOLI P21865 Sensor protein kdpD (2.7.13.3) (894 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = -1 Query: 115 NAPGSRHPKRWQDIEELLEAGIDV 138 N SRHP+R D + L + + V Sbjct: 466 NPHFSRHPRRASD*QGLAMSSVSV 395 Score = 19.6 bits (39), Expect = 2.8, Method: Compositional matrix adjust. Identities = 18/80 (22%), Positives = 32/80 (40%) Frame = +2 Query: 666 ALLAALSHDLRTPLTVLFGQAEILTLDLASEGSPHARQASEIRQHXXXXXXXXXXXXDMA 725 A++ A+S++ P +F E L + LA+ Q E+R + Sbjct: 3857 AVVEAVSNEKSLPREKIF---EALEIALATATKKKHEQEIEVRVNIDR------------ 3991 Query: 726 RIQSGGFNLKKEWLTLEEVV 745 ++G F + W + EVV Sbjct: 3992 --KTGDFETFRRWKVVSEVV 4045 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDPE_ECOLI P21866 KDP operon transcriptional regulatory protein kdpE (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +3 Query: 168 GKVLTQRQLLNQVW 181 G+ + LLN VW Sbjct: 2607 GRFIWSGCLLNSVW 2648 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDPF_ECOLI P36937 Protein kdpF (29 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDRA_ECOLI P76469 2-keto-3-deoxy-L-rhamnonate aldolase (KDR aldolase) (4.1.2.n3) (2-dehydro-3-deoxyrhamnonate aldolase) (2-keto-3-deoxy acid sugar aldolase) (267 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.68, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 11/14 (78%) Frame = -1 Query: 239 DTMLYSDALDQRLA 252 + +L+ DALDQRL Sbjct: 6904 EIVLF*DALDQRLV 6863 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDSA_ECOLI P0A715 2-dehydro-3-deoxyphosphooctonate aldolase (2.5.1.55) (Phospho-2-dehydro-3-deoxyoctonate aldolase) (3-deoxy-D-manno-octulosonic acid 8-phosphate synthetase) (KDO-8-phosphate synthetase) (KDO 8-P synthase) (KDOPS) (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDSB_ECOLI P04951 3-deoxy-manno-octulosonate cytidylyltransferase (2.7.7.38) (CMP-KDO synthetase) (CMP-2-keto-3-deoxyoctulosonic acid synthetase) (CKS) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = +1 Query: 173 TVGDNFLRHLGIYGYRAGFIRR 194 +VGDNF+ G FI++ Sbjct: 121 SVGDNFILLSGDDATGFDFIQK 186 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDSC_ECOLI P0ABZ4 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase (3.1.3.45) (KDO 8-P phosphatase) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 147 PLLIPRADYV 156 PL++PR + V Sbjct: 770 PLIVPRVELV 741 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDSD_ECOLI P45395 Arabinose 5-phosphate isomerase (5.3.1.13) (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +2 Query: 212 TGDEIPHV 219 +G+EIPH+ Sbjct: 6926 SGEEIPHL 6949 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDTA_ECOLI P0AC75 3-deoxy-D-manno-octulosonic-acid transferase (2.4.-.-) (KDO transferase) (425 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +2 Query: 327 SLVERGGHNPLEAAAH 342 SLV R HNP A ++ Sbjct: 3086 SLVARRAHNPKVAGSN 3133 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDUD_ECOLI P37769 2-dehydro-3-deoxy-D-gluconate 5-dehydrogenase (1.1.1.127) (2-keto-3-deoxygluconate oxidoreductase) (KDG oxidoreductase) (2-keto-3-deoxygluconate 5-dehydrogenase) (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +1 Query: 89 LVNNAGLIRREDALEF 104 L ++AGLI + LEF Sbjct: 2098 LFDDAGLILVDFKLEF 2145 Score = 16.2 bits (30), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 181 INVNAIAPG 189 I+VNA PG Sbjct: 6719 IDVNAACPG 6693 Score = 16.2 bits (30), Expect = 7.9, Method: Compositional matrix adjust. Identities = 14/44 (31%), Positives = 21/44 (47%) Frame = -2 Query: 193 TNNTQQLRADEQRSAEILDRIPAGRWGLPSDLMGPIVFLASSAS 236 T ++Q L + +R+ L I LPS IVF +SS + Sbjct: 4884 TLSSQPLS*ETKRTF*PLRPIACAE--LPSSTAMFIVFASSSTT 4759 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KDUI_ECOLI Q46938 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase (5.3.1.17) (5-keto-4-deoxyuronate isomerase) (DKI isomerase) (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.29, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -3 Query: 233 NEQAVISPSWSIHSG 247 N + P WS+HSG Sbjct: 5144 NFLLFLEPMWSVHSG 5100 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KEFA_ECOLI P77338 Potassium efflux system kefA (Protein aefA) (Precursor) (1120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.4, Method: Composition-based stats. Identities = 9/28 (32%), Positives = 15/28 (53%) Frame = +2 Query: 444 QQQLMSVSKNLKSILTQQIFWVNSNRPM 471 Q ++ + + + +L QQI W RPM Sbjct: 6692 HQGMLRLHQCVHEVLRQQISWFWLLRPM 6775 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KEFB_ECOLI P45522 Glutathione-regulated potassium-efflux system protein kefB (K(+)/H(+) antiporter) (NEM-activable K(+)/H(+) antiporter) (601 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 9.6, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = +3 Query: 229 ALFMDALGLSMA 240 ALF ALG+S++ Sbjct: 3333 ALFFYALGVSLS 3368 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KEFC_ECOLI P03819 Glutathione-regulated potassium-efflux system protein kefC (K(+)/H(+) antiporter) (620 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KEFF_ECOLI P0A754 Glutathione-regulated potassium-efflux system ancillary protein kefF (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -1 Query: 134 YCGLNWLP 141 Y GLNW P Sbjct: 760 YQGLNWWP 737 Score = 15.4 bits (28), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -3 Query: 96 HGKHLLWAVTT 106 HG HL+ + T Sbjct: 3545 HGTHLVANICT 3513 Score = 15.4 bits (28), Expect = 8.4, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = +3 Query: 137 LNWLPPFAMH 146 + WL +A+H Sbjct: 1488 MRWLRCYALH 1517 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KEFG_ECOLI P0A756 Glutathione-regulated potassium-efflux system ancillary protein kefG (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KGTP_ECOLI P0AEX3 Alpha-ketoglutarate permease (432 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = -1 Query: 33 VEWFDFYVYSFC 44 + +F+ YV+ FC Sbjct: 4810 ITFFNCYVHRFC 4775 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KGUA_ECOLI P60546 Guanylate kinase (2.7.4.8) (GMP kinase) (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.044 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.044, Method: Compositional matrix adjust. Identities = 11/23 (47%), Positives = 14/23 (60%) Frame = +1 Query: 117 HARSIFILPPSKIELDRRLRGRG 139 HAR+ +K+E DRR R RG Sbjct: 6061 HARAAEDENDAKVEGDRRSRSRG 6129 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = -2 Query: 18 SSLIQALLKTQPL 30 SSLI L +QPL Sbjct: 4902 SSLIVITLSSQPL 4864 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KHSE_ECOLI P00547 Homoserine kinase (HSK) (HK) (2.7.1.39) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.28, Method: Compositional matrix adjust. Identities = 10/38 (26%), Positives = 18/38 (47%) Frame = -2 Query: 34 DVVTVEAAETFSLNNLGRFADKLPSEPRENIVYQCWER 71 + ++ F+ ++ G + KL S R N+V W R Sbjct: 5208 NAISRSKLAKFNKSSAGLLSPKLSSFFRANVVSTFWAR 5095 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +2 Query: 73 CQELGKQIPVAMTLE 87 CQ+ G++IP T + Sbjct: 6917 CQKSGEEIPHLFTYQ 6961 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KIL_ECOLI P38393 Protein kil (73 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.072 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.072, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +2 Query: 9 DEIPRQCVTPGDYV 22 D +PR+ + PGD + Sbjct: 4367 DMLPRENIRPGDRI 4408 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KITH_ECOLI P23331 Thymidine kinase (2.7.1.21) (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = +1 Query: 46 AGKVSSRIGL 55 +GKVSSR+ + Sbjct: 3697 SGKVSSRLSM 3726 Score = 16.5 bits (31), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 13/19 (68%), Gaps = 2/19 (10%) Frame = -2 Query: 2 AQLYFYYSAM--NAGKSTA 18 + L FY+++ NA +STA Sbjct: 1554 SPLSFYFASF*FNAARSTA 1498 Score = 15.4 bits (28), Expect = 8.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +1 Query: 128 SQYLLAW 134 QYLL W Sbjct: 5326 PQYLLVW 5346 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KPPR_ECOLI P0AEX5 Probable phosphoribulokinase (PRKase) (PRK) (2.7.1.19) (Phosphopentokinase) (289 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KPRS_ECOLI P0A717 Ribose-phosphate pyrophosphokinase (RPPK) (2.7.6.1) (Phosphoribosyl pyrophosphate synthetase) (P-Rib-PP synthetase) (PRPP synthetase) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +3 Query: 274 TIPLSDEIKSLPNVR 288 T+ DE+ +L N+R Sbjct: 3744 TVDGKDEVFALSNIR 3788 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KPTA_ECOLI P39380 RNA 2'-phosphotransferase (2.7.1.-) (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 8/8 (100%) Frame = -3 Query: 115 IKKQGLIA 122 IKK+GLIA Sbjct: 3347 IKKKGLIA 3324 Score = 16.9 bits (32), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/41 (19%), Positives = 14/41 (34%) Frame = -1 Query: 117 KQGLIAGERHYVHLSADEATARKVGARHGSPVILTVKAQEM 157 + G + +VH K GAR ++L+ Sbjct: 3877 RNGFYNSQNLFVHPKLPRLNF*KWGARFALRILLSANTSSF 3755 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KPYK1_ECOLI P0AD61 Pyruvate kinase I (2.7.1.40) (PK-1) (470 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.78, Method: Compositional matrix adjust. Identities = 13/44 (29%), Positives = 21/44 (47%) Frame = +2 Query: 211 GGENIHIISKIENQEGLNNFDEILEASDGIMVARGDLGVEIPVE 254 GGE +H+ +KI +NF S G ++RG + P+ Sbjct: 3353 GGEFVHVGTKINR----DNFST--GKSLGTQISRGRIYSRAPIH 3466 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KPYK2_ECOLI P21599 Pyruvate kinase II (2.7.1.40) (PK-2) (480 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 128 LLDDGRVQLKVLEVQ 142 L D+G VQL + + Q Sbjct: 2007 LTDNGIVQLIIFQKQ 1963 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KSGA_ECOLI P06992 Dimethyladenosine transferase (2.1.1.-) (S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase) (16S rRNA dimethylase) (High level kasugamycin resistance protein ksgA) (Kasugamycin dimethyltransferase) (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KTHY_ECOLI P0A720 Thymidylate kinase (2.7.4.9) (Thymidine monophosphate kinase) (dTMP kinase) (TMPK) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.46, Method: Compositional matrix adjust. Identities = 15/51 (29%), Positives = 20/51 (39%) Frame = +1 Query: 104 STQAYQGGGRGIDQHMLATLRDAVLGDFRPDLTLYLDVTPEVGLKRARARG 154 ST+ G GI QH+ A + G + +LD RARG Sbjct: 6595 STKVAAGEAGGITQHIGAYHVETENG-----MVTFLDTPGHAAFTSMRARG 6732 Score = 17.3 bits (33), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 191 QPLEAVMDAIRTTVT 205 +PL A++ A TVT Sbjct: 6341 EPLTAILFASSATVT 6297 Score = 16.9 bits (32), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 16/32 (50%) Frame = +1 Query: 84 TVIKPALANGTWVIGDRHDLSTQAYQGGGRGI 115 ++IKP++ + ++ Q GG+GI Sbjct: 106 SMIKPSVGDNFILLSGDDATGFDFIQKGGQGI 201 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= KUP_ECOLI P63183 Low affinity potassium transport system protein kup (Kup system potassium uptake protein) (622 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 198 LNPMWAVH 205 L PMW+VH Sbjct: 5129 LEPMWSVH 5106 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LACI_ECOLI P03023 Lactose operon repressor (360 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 8/8 (100%) Frame = +1 Query: 299 TSVDRLLQ 306 TSVDRL+Q Sbjct: 5425 TSVDRLIQ 5448 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 15/30 (50%) Frame = +2 Query: 266 ADISVVGYDDTEDSSCYIPPLTTIKQDFRL 295 ADIS + D+ + +TT+ Q+ L Sbjct: 791 ADISKLLLDNNRQNDTLWSQITTVMQNESL 880 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LACY_ECOLI P02920 Lactose permease (Lactose-proton symport) (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.18, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = +2 Query: 216 LFRQPKLWFLSLYVIGVSC 234 L R+ + W L +VI +SC Sbjct: 6398 LIRKQRNWLLKKWVIKLSC 6454 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LAMB_ECOLI P02943 Maltoporin (Maltose-inducible porin) (Lambda receptor protein) (Precursor) (446 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LAR_ECOLI P33229 Restriction alleviation and modification enhancement protein (64 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 18 TVKAISG 24 TVKA+SG Sbjct: 2750 TVKAVSG 2770 Score = 14.6 bits (26), Expect = 3.8, Method: Composition-based stats. Identities = 6/24 (25%), Positives = 10/24 (41%) Frame = -2 Query: 6 VKPCPFCGCPSVTVKAISGYYRAK 29 +K C + +G+Y AK Sbjct: 174 IKTCRIITAQQNKIITNAGFYHAK 103 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LAST_ECOLI P37005 Uncharacterized tRNA/rRNA methyltransferase lasT (2.1.1.-) (228 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.095 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.095, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 16/31 (51%) Frame = +1 Query: 177 LRERAMTLLTTLAVADDIKLVDWLQQRLGLL 207 L ER M L L + + V W +RLGL+ Sbjct: 289 LNERLMPLHKELFIEANPIAVKWACKRLGLI 381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LCFA_ECOLI P69451 Long-chain-fatty-acid--CoA ligase (6.2.1.3) (Long-chain acyl-CoA synthetase) (Acyl-CoA synthetase) (561 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LDCA_ECOLI P76008 Muramoyltetrapeptide carboxypeptidase (3.4.17.13) (LD-carboxypeptidase A) (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.029 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.029, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 12/17 (70%) Frame = +2 Query: 83 LADIDWQALVARQQHDP 99 +D W +LVAR+ H+P Sbjct: 3065 FSDAGWSSLVARRAHNP 3115 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LDCI_ECOLI P0A9H3 Lysine decarboxylase, inducible (LDC) (4.1.1.18) (715 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -2 Query: 451 FDVWQPDHIDTTECWPLRS 469 F+V PD + C+P R+ Sbjct: 6660 FNVISPDMLCDPSCFPCRN 6604 Score = 18.1 bits (35), Expect = 5.7, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 16/32 (50%) Frame = -1 Query: 623 AFQKELHGMTEEVYLDEMVGRINANMILPYPP 654 A L+G+ +YL V + + +LP+ P Sbjct: 307 ALNAHLNGLLR*IYLQLPVDKAPSFHLLPHWP 212 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LDHD_ECOLI P52643 D-lactate dehydrogenase (D-LDH) (1.1.1.28) (Fermentative lactate dehydrogenase) (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.91, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -1 Query: 49 CIFVNDDGS 57 C+FVN+D S Sbjct: 4777 CVFVNNDRS 4751 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LDRA_ECOLI Q6BF86 Small toxic polypeptide ldrA/ldrC (35 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LDRB_ECOLI Q6BF87 Small toxic polypeptide ldrB (35 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LDRD_ECOLI Q6BF25 Small toxic polypeptide ldrD (35 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEP4_ECOLI P25960 Type 4 prepilin-like proteins leader peptide-processing enzyme (Leader peptidase) (3.4.23.43) (Prepilin peptidase) (N-methyltransferase) (2.1.1.-) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = +2 Query: 171 WQTLPMILLIASLGGI 186 WQ + LIAS + Sbjct: 5408 WQQRSQLQLIASYSSL 5455 Score = 15.8 bits (29), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/20 (25%), Positives = 9/20 (45%) Frame = -2 Query: 144 GVWLVCHKEGLGYGDFKLLA 163 VW + + GDF+ + Sbjct: 6873 SVWFIYFVDNNDNGDFRCFS 6814 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEPA_ECOLI P60785 GTP-binding protein lepA (599 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 64 7e-14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 64.3 bits (155), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 57/179 (31%), Positives = 85/179 (47%), Gaps = 12/179 (6%) Frame = +1 Query: 7 FSIIAHIDHGKSTLSD--RIIQIC----GGLSDREMEAQVLDSMDLERERGITIKAQSVT 60 +I+ H+DHGK++L D R ++ GG++ Q + + +E E G+ Sbjct: 6538 VTIMGHVDHGKTSLLDCIRSTKVAAGEAGGIT------QHIGAYHVETENGM-------- 6675 Query: 61 LDYKASDGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAM 120 + F+DTPGH F+ +R A + +LVV A GV QT+ A Sbjct: 6676 ------------VTFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAK 6819 Query: 121 EMDLEVVPVLNKIDLPAADPERVAEEIE------DIVGIDATDAVRCSAKTGVGVQDVL 173 + VV V+NKID P ADPER+ E+ + G D+ V SAK G G+ D+L Sbjct: 6820 AAKVPVVVVINKIDKPNADPERLRTELSQHGILPEEWGGDSP-FVHVSAKKGTGIDDLL 6993 Score = 19.6 bits (39), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +1 Query: 371 VYEVETTSREVIYVDSP 387 Y VET + V ++D+P Sbjct: 6646 AYHVETENGMVTFLDTP 6696 Score = 17.7 bits (34), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -1 Query: 398 ELREPIAECHMLLPQ 412 +L +P H+LLP+ Sbjct: 6109 DLLQPWHHFHLLLPE 6065 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEP_ECOLI P00803 Signal peptidase I (SPase I) (3.4.21.89) (Leader peptidase I) (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -3 Query: 82 YEPFQIPSGSM 92 YEP ++PS S+ Sbjct: 3110 YEPDELPSCSI 3078 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +3 Query: 22 VDKFFFAPKRRER 34 D+F F KRR R Sbjct: 159 CDRF*FYTKRRAR 197 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +1 Query: 20 WCVDKFFFAP 29 W + FFF P Sbjct: 3322 WAIRPFFFMP 3351 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEU1_ECOLI P09151 2-isopropylmalate synthase (2.3.3.13) (Alpha-isopropylmalate synthase) (Alpha-IPM synthetase) (523 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -1 Query: 2 SQQVIIFDTTLR 13 S VIIFD+ L+ Sbjct: 1594 SNSVIIFDSRLK 1559 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEU3_ECOLI P30125 3-isopropylmalate dehydrogenase (1.1.1.85) (Beta-IPM dehydrogenase) (IMDH) (3-IPM-DH) (363 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -2 Query: 238 SQFDVLLCSN 247 SQF + LCS+ Sbjct: 2895 SQFKISLCSD 2866 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +2 Query: 81 WEHLPP 86 W+ LPP Sbjct: 1247 WQRLPP 1264 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEUC_ECOLI P0A6A6 3-isopropylmalate dehydratase large subunit (4.2.1.33) (Isopropylmalate isomerase) (Alpha-IPM isomerase) (IPMI) (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +2 Query: 288 VTWGTNPGQVI 298 V W NP Q + Sbjct: 4691 VLWDDNPAQFV 4723 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 203 FCGEAIRD 210 F GEA+RD Sbjct: 1902 FTGEAVRD 1925 Score = 17.7 bits (34), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -2 Query: 402 WRLPGCSMCLAMNN 415 WRL CS+ A NN Sbjct: 591 WRL*RCSVEQAANN 550 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEUD_ECOLI P30126 3-isopropylmalate dehydratase small subunit (4.2.1.33) (Isopropylmalate isomerase) (Alpha-IPM isomerase) (IPMI) (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.4, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +3 Query: 169 RHCMMNGLDSIGLT 182 RH + SIGLT Sbjct: 2946 RHATLRW*CSIGLT 2987 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEUE_ECOLI P76249 Leucine efflux protein (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.28, Method: Compositional matrix adjust. Identities = 12/24 (50%), Positives = 13/24 (54%) Frame = +2 Query: 45 LAACGVFIGDAVLMFLAWAGVATL 68 LAACGV L LA GV+ L Sbjct: 5213 LAACGV----CTLEDLAEQGVSDL 5272 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 14/41 (34%) Frame = -1 Query: 110 EPQYGAIFKRALILSLTNPKAILFYVSFFVQFIDVNAPHTG 150 EP+Y L+ N Y SF F + H G Sbjct: 2308 EPRYV*QLAHRLLSHRLNCHESDLYPSFLTSFYPTSDSHRG 2186 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 142 IDVNAPHTGIS 152 IDVNA G+S Sbjct: 6719 IDVNAACPGVS 6687 Score = 16.2 bits (30), Expect = 5.6, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 8/12 (66%) Frame = -2 Query: 125 LTNPKAILFYVS 136 +NP + FY++ Sbjct: 5964 FSNPFRVFFYLT 5929 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEUO_ECOLI P10151 Probable HTH-type transcriptional regulator leuO (314 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.20, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%) Frame = -1 Query: 100 LPGSGFEPASSERVFHLCV-CSPLD 123 +P +GFEP S +HL V C P+ Sbjct: 3010 VPRTGFEPVSPIEHYHLKVACLPIS 2936 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 12/18 (66%) Frame = +3 Query: 229 TVDKQASIAYQGMAMMSV 246 TVD A ++YQ A++ V Sbjct: 3501 TVDMCADVSYQVSAVLDV 3554 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = -2 Query: 302 QWMEEQLVSICKR 314 +W+ + S+CKR Sbjct: 2403 EWILTKACSLCKR 2365 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 103 SGFEPAS 109 +GFEPA+ Sbjct: 3138 AGFEPAT 3118 Score = 16.5 bits (31), Expect = 7.9, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 6/12 (50%) Frame = +3 Query: 302 QWMEEQLVSICK 313 W E L+S C Sbjct: 4665 SWGENVLISFCG 4700 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LEXA_ECOLI P0A7C2 LexA repressor (3.4.21.88) (202 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.57 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.57, Method: Compositional matrix adjust. Identities = 11/21 (52%), Positives = 13/21 (61%) Frame = +1 Query: 81 RVAAGEPLLAQQHIEGHYQVD 101 +VAAGE QHI G Y V+ Sbjct: 6601 KVAAGEAGGITQHI-GAYHVE 6660 Score = 17.3 bits (33), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 12/22 (54%) Frame = -2 Query: 104 LFKPNADFLLRVSGMSMKDIGI 125 F PN+ + L+ +D+G+ Sbjct: 3657 FFPPNSQYNLQR*TTGAQDLGM 3592 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LFTR_ECOLI P0A8P1 Leucyl/phenylalanyl-tRNA--protein transferase (2.3.2.6) (L/F-transferase) (Leucyltransferase) (Phenyalanyltransferase) (234 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 14/27 (51%) Frame = +1 Query: 97 QVIEGCASDREEGTWITRGVVEAYHRL 123 + +E DR G GV+EAY ++ Sbjct: 2215 KTLEKMDKDRFRGNL--GGVIEAYEQV 2289 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 6 LSRHSIAFPSPE 17 + RH I FP+ + Sbjct: 4897 VDRHHIKFPATQ 4862 Score = 16.5 bits (31), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +3 Query: 165 ASKTALLVFCEEFI 178 A TAL VFC ++ Sbjct: 4392 ALVTALEVFCMRYV 4433 Score = 15.8 bits (29), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +2 Query: 47 FPWFSPGDPIL 57 +P PG P+L Sbjct: 3782 YPQSKPGTPLL 3814 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LGT_ECOLI P60955 Prolipoprotein diacylglyceryl transferase (2.4.99.-) (291 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.31, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 153 WGRVDPNFPFA 163 W R D + PFA Sbjct: 935 WNRADEDVPFA 967 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -3 Query: 8 FPEFDPVIFSIGPVALHWYG 27 FP+ +IFS AL +G Sbjct: 3653 FPQIVSIIFSGKQQALKTWG 3594 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LGUL_ECOLI P0AC81 Lactoylglutathione lyase (4.4.1.5) (Methylglyoxalase) (Aldoketomutase) (Glyoxalase I) (Glx I) (Ketone-aldehyde mutase) (S-D-lactoylglutathione methylglyoxal lyase) (135 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.2, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +1 Query: 86 CEKIRQN 92 C K RQN Sbjct: 1147 CSKHRQN 1167 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LHR_ECOLI P30015 Probable ATP-dependent helicase lhr (3.6.1.-) (Large helicase-related protein) (1538 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 3.5, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 233 VTVVNPPAMRHPQ 245 + +VNP RHP+ Sbjct: 478 IKIVNPHFSRHPR 440 Score = 20.0 bits (40), Expect = 3.9, Method: Composition-based stats. Identities = 8/28 (28%), Positives = 16/28 (57%) Frame = +1 Query: 1020 VSYPLRDLFLRYLRAHALVTAEQLAHEF 1047 +++PL +LFL+ + H + +E F Sbjct: 1942 LNHPLFELFLKNDQLHDPIVSEAYCKAF 2025 Score = 19.6 bits (39), Expect = 4.1, Method: Composition-based stats. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -3 Query: 1015 IYLHRVSYPLRDLFLR 1030 + H +YP LFLR Sbjct: 4391 VCFHEAAYPPVQLFLR 4344 Score = 19.2 bits (38), Expect = 5.4, Method: Compositional matrix adjust. Identities = 12/45 (26%), Positives = 19/45 (42%) Frame = +1 Query: 1097 RPVAATTYARLLLERQGVLPATDGSPALFASTSPGVYEGVDGVMR 1141 +P A R L + G+LP G + F S G+D ++ Sbjct: 6862 KPNADPERLRTELSQHGILPEEWGGDSPFVHVSAKKGTGIDDLLN 6996 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIGB_ECOLI P25772 DNA ligase B (6.5.1.2) (Polydeoxyribonucleotide synthase [NAD+] B) (560 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 12/28 (42%) Frame = -1 Query: 474 WHQFNLARKQPFTRWVMAMGIPLTRAAL 501 W + L +PF RW + +G A Sbjct: 667 WQDYPL*CIEPF*RWCIKIGFITAHLAF 584 Score = 19.6 bits (39), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 8/17 (47%) Frame = -1 Query: 463 PGIAKSKSAQLWHQFNL 479 PG Q WH F+L Sbjct: 6127 PGCDYGDLLQPWHHFHL 6077 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIGT_ECOLI P37025 2'-5'-RNA ligase (6.5.1.-) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.0, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = -3 Query: 87 VVWLGMRQPPRGLIQLAN 104 + WL + PP +I L Sbjct: 6398 ITWLIVAIPPSFIIVLMT 6345 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 97 RGLIQL 102 RGLIQL Sbjct: 3286 RGLIQL 3269 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIPA_ECOLI P60716 Lipoyl synthase (2.8.1.8) (Lipoic acid synthase) (Lipoate synthase) (Sulfur insertion protein lipA) (Lip-syn) (LS) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 12/25 (48%) Frame = -1 Query: 207 PGADYNWSLKLLERFKEAHPEIPTK 231 PG DY LL+ + H +P + Sbjct: 6127 PGCDYG---DLLQPWHHFHLLLPER 6062 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIPB_ECOLI P60720 Octanoyltransferase (2.3.1.181) (Octanoyl-[acyl-carrier-protein]-protein N-octanoyltransferase) (Lipoyl/octanoyl transferase) (Lipoate-protein ligase B) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIT_ECOLI P11072 Bacteriophage T4 late gene expression-blocking protein (GpLit) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 5/8 (62%) Frame = +1 Query: 122 GCESWPKK 129 GC W KK Sbjct: 2194 GCRLWDKK 2217 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIVF_ECOLI P22731 High-affinity branched-chain amino acid transport ATP-binding protein livF (LIV-I protein F) (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 5/21 (23%) Frame = +2 Query: 171 IIIQQIFD-----TIEQLREQ 186 +I+Q++ + IEQ REQ Sbjct: 4208 VIVQKVREAERAVVIEQFREQ 4270 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +2 Query: 213 GHVVLSDTGDALLA 226 GH + DAL+A Sbjct: 1460 GHTLNQQQNDALVA 1501 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIVG_ECOLI P0A9S7 High-affinity branched-chain amino acid transport ATP-binding protein livG (LIV-I protein G) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.28, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -1 Query: 37 IGPNGAGKTTVFNC 50 I PN + T FNC Sbjct: 4834 IAPNRLCRITFFNC 4793 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIVH_ECOLI P0AEX7 High-affinity branched-chain amino acid transport system permease protein livH (LIV-I protein H) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIVJ_ECOLI P0AD96 Leu/Ile/Val-binding protein (LIV-BP) (Precursor) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.1, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 16/41 (39%) Frame = +1 Query: 184 GLKKGNANVVFFDGITAGEKDFSTLVARLKKENIDFVYYGG 224 GLK+ N+ I D L++ DF+ GG Sbjct: 70 GLKEATGNLERLSMIKPSVGDNFILLSGDDATGFDFIQKGG 192 Score = 16.5 bits (31), Expect = 8.3, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 17/35 (48%) Frame = +1 Query: 37 PVAQYGDQEFTGAEQAVADINAKGGIKGNKLQIVK 71 PVA G VA++ K +KG+ Q++K Sbjct: 6256 PVAVVNRDVIIGETVTVAELANKMAVKGS--QVIK 6354 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIVK_ECOLI P04816 Leucine-specific-binding protein (LS-BP) (L-BP) (Precursor) (369 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +3 Query: 64 GDKLVGVEY 72 G KLVGVE+ Sbjct: 3420 GHKLVGVEF 3446 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -2 Query: 282 QGIVDALKADK 292 QGI+DAL +K Sbjct: 453 QGILDALLINK 421 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 16/41 (39%) Frame = +1 Query: 184 GLKAANANVVFFDGITAGEKDFSALIARLKKENIDFVYYGG 224 GLK A N+ I D L++ DF+ GG Sbjct: 70 GLKEATGNLERLSMIKPSVGDNFILLSGDDATGFDFIQKGG 192 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LIVM_ECOLI P22729 High-affinity branched-chain amino acid transport system permease protein livM (LIV-I protein M) (425 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 15/31 (48%) Frame = -3 Query: 50 IGTAVVFFFQLLRPAFQKGLKSVSGPKFILP 80 + V+ F LLRP + +S + +LP Sbjct: 6245 LCCKVLGFLLLLRPTARASSRSAFDSESLLP 6153 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = -1 Query: 155 LLNHYYGLGF 164 LLNHY F Sbjct: 4258 LLNHYCSFSF 4229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LLDD_ECOLI P33232 L-lactate dehydrogenase [cytochrome] (1.1.2.3) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.3, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 109 SVCPIEEVAPAIKR 122 +VCP+E V + R Sbjct: 1470 NVCPLESVNCTLLR 1429 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LLDP_ECOLI P33231 L-lactate permease (551 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LLDR_ECOLI P0ACL7 Putative L-lactate dehydrogenase operon regulatory protein (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LNT_ECOLI P23930 Apolipoprotein N-acyltransferase (ALP N-acyltransferase) (2.3.1.-) (Copper homeostasis protein cutE) (512 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 416 FGKSIGPWQHFQM 428 +G + PW HF + Sbjct: 6115 YGDLLQPWHHFHL 6077 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LOLA_ECOLI P61316 Outer-membrane lipoprotein carrier protein (P20) (Precursor) (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.46, Method: Compositional matrix adjust. Identities = 25/102 (24%), Positives = 37/102 (36%) Frame = +2 Query: 50 GAAVQEGQGDLWVKRPNLFNWHMTQPDESILVSDGKTLWFYNPFVEQATATWLKDATGNT 109 GA VQ +L +R ++ W D + N A+ + D T Sbjct: 4637 GARVQAVSNELGGERIDIVLWD-----------DNPAQFVLNAMAPAEVASIVVDEDAKT 4783 Query: 110 PFMLIARNQSSDWQQYNIKQNGDDFVLTPKASNGNLKQFTIN 151 M IA + + Q I +NG + L + S L TIN Sbjct: 4784 --MNIAVEEGNSAQA--IGRNGQNVRLVSQLSGWELNVMTIN 4897 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +1 Query: 158 IHQFSAVEQDDQRS 171 IH+ S + DDQR+ Sbjct: 3013 IHRDSLLLDDDQRT 3054 Score = 16.5 bits (31), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +1 Query: 118 QSSDWQQYNIKQNGDD 133 QSS+W+ N+ Q D Sbjct: 2755 QSSEWE--NLSQPAKD 2796 Score = 15.8 bits (29), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 8/14 (57%) Frame = -1 Query: 33 KVSSFHASFTQKVT 46 ++ HA+ K+T Sbjct: 1456 RIGELHATTVAKIT 1415 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LOLB_ECOLI P61320 Outer-membrane lipoprotein lolB (Precursor) (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.5, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 13/29 (44%) Frame = -3 Query: 62 SDQQKVYARFFWQQTGQDRYRLLLTNPLG 90 +D K + R Q RYR + PLG Sbjct: 1259 ADVAKRWRRVLVQ*VWVKRYRHVPLVPLG 1173 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -1 Query: 176 YDTKTQPAMPA 186 + QPA+PA Sbjct: 5740 FSQPAQPALPA 5708 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LOLC_ECOLI P0ADC3 Lipoprotein-releasing system transmembrane protein lolC (399 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 61 GLMPQAILSSEH 72 G+MPQ I + +H Sbjct: 6778 GVMPQTIEAIQH 6813 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LOLD_ECOLI P75957 Lipoprotein-releasing system ATP-binding protein lolD (3.6.3.-) (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.82 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.82, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -2 Query: 92 IYQFHHL 98 +YQFHHL Sbjct: 2949 VYQFHHL 2929 Score = 18.9 bits (37), Expect = 1.0, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 10/17 (58%) Frame = +1 Query: 31 SVGEGEMMAIVGSSGSG 47 S G G + GSSGSG Sbjct: 2614 SFGAGASSTLFGSSGSG 2664 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -3 Query: 53 HLLGGLDTPTSGDVI 67 HL+ + T +GD I Sbjct: 3536 HLVANICTHINGDAI 3492 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = -3 Query: 204 HDLQLAKRMSRQ 215 HDL L SRQ Sbjct: 5198 HDLNLLNLTSRQ 5163 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LOLE_ECOLI P75958 Lipoprotein-releasing system transmembrane protein lolE (414 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.4, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 12/20 (60%) Frame = -3 Query: 315 IRAIFVWYGLLAGLFGSLCG 334 +R +FV L LFG LCG Sbjct: 4232 LRVLFVQ*--LVSLFG*LCG 4179 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LOMR_ECOLI P77184 Putative protein lomR (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LONH_ECOLI P75867 Putative protease La homolog (3.4.21.-) (586 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 28 0.005 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 28.1 bits (61), Expect = 0.005, Method: Compositional matrix adjust. Identities = 16/31 (51%), Positives = 20/31 (64%) Frame = +1 Query: 496 GKQGVIIPTANVRHLSLHSELVKAVEEGKFT 526 G QG+I TANV + +EL + V EGKFT Sbjct: 187 GGQGIISVTANVAAGGM-TELCQRVAEGKFT 276 Score = 21.2 bits (43), Expect = 0.64, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = -1 Query: 372 RISCVVHIGDGE 383 R+ C++ IGDGE Sbjct: 913 RLICILTIGDGE 878 Score = 19.6 bits (39), Expect = 1.9, Method: Compositional matrix adjust. Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 1/66 (1%) Frame = +1 Query: 457 NQSIAITGS-VDQFGRAQPVGGLNEKIEGFFAICQQRELTGKQGVIIPTANVRHLSLHSE 515 N + A+ G + F R G +N K F I + E G IPT R LS + Sbjct: 1693 NDTSAMDGQRIQAFDRK---GMINNKFNHF--IMNRLEAAG-----IPTQMERLLSDNEA 1842 Query: 516 LVKAVE 521 LVK +E Sbjct: 1843 LVKRLE 1860 Score = 18.5 bits (36), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 10/21 (47%) Frame = +2 Query: 483 EGFFAICQQRELTGKQGVIIP 503 E + + L QG+I+P Sbjct: 605 EAYLNAPALKRLNASQGIILP 667 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LON_ECOLI P0A9M0 ATP-dependent protease La (3.4.21.53) (784 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 5.6, Method: Compositional matrix adjust. Identities = 13/45 (28%), Positives = 18/45 (40%) Frame = +2 Query: 116 YLESPTIDEREQEVLVRTAISQFEGYIKLNKKIPPEVLTSLNSID 160 ++E IDE VLV S E +P L ++S D Sbjct: 4946 FIEHLEIDEECATVLVEAEFSSLEEL----AYVPESELPEIDSFD 5068 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPF2_ECOLI P0AD74 Phenylalanyl-tRNA synthetase operon leader peptide (PheST attenuator peptide) (14 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPFS_ECOLI P0ADF0 Putative fruR/shl operon leader peptide (28 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.1 bits (22), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = -2 Query: 1 MRNLQPNMSRWAFF 14 +RN+ R A+F Sbjct: 2841 LRNIAARFWRRAYF 2800 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPFUR_ECOLI A8DYP9 Fur leader peptide (28 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPF_ECOLI P0AD72 Phe operon leader peptide (Phe operon attenuator peptide) (15 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPHI_ECOLI P60995 His operon leader peptide (His operon attenuator peptide) (16 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPID_ECOLI P62522 IlvGMEDA operon leader peptide (IlvGMEDA operon attenuator peptide) (32 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 4.2, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = +1 Query: 23 CGAALGR 29 CG +GR Sbjct: 2485 CGDPIGR 2505 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPIV_ECOLI P03061 IlvBN operon leader peptide (IlvBN operon attenuator peptide) (32 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPLA_ECOLI P32099 Lipoate-protein ligase A (2.7.7.63) (Lipoate--protein ligase) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +1 Query: 129 VEGDRKVSGSAYRETKDR 146 VEGDR+ + TK + Sbjct: 6097 VEGDRRSRSRGSKTTKQK 6150 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -1 Query: 207 AFFAHYGER 215 AFF YG++ Sbjct: 6226 AFFCFYGQQ 6200 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 276 ITRAQVFT 283 +TRA VFT Sbjct: 4402 VTRAYVFT 4379 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPLT_ECOLI P39196 Lysophospholipid transporter lplT (397 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 8/10 (80%), Positives = 8/10 (80%) Frame = -1 Query: 303 HELLPAYALL 312 H LLP YALL Sbjct: 5992 HFLLPFYALL 5963 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPL_ECOLI P0AD79 Leu operon leader peptide (Leu operon attenuator peptide) (28 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.51, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -3 Query: 1 MTHIVRFIGLLLLNAS 16 MTH + I L NAS Sbjct: 1883 MTHSIGIISNLFTNAS 1836 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPPY_ECOLI P0AD83 PyrBI operon leader peptide (PyrBI operon attenuator) (44 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPP_ECOLI P69776 Major outer membrane lipoprotein (Murein-lipoprotein) (Precursor) (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.054 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.054, Method: Compositional matrix adjust. Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 1/58 (1%) Frame = +2 Query: 12 ILGSTLLAGCSSNAKID-QLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDDAARANQR 68 +L LLA CS+ + Q+S D LNA + N + +Q D A+ +Q+ Sbjct: 536 VLWLMLLAACSTEQRYKRQVSGDEAYLNAPALKRLNASQGIILPLQHGTYDIAQVSQQ 709 Score = 20.4 bits (41), Expect = 0.10, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 11/12 (91%) Frame = +2 Query: 52 RSDVQAAKDDAA 63 R +VQAA+DD+A Sbjct: 1172 RLEVQAARDDSA 1207 Score = 15.8 bits (29), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%), Gaps = 2/14 (14%) Frame = +1 Query: 19 AGCSSNA--KIDQL 30 +GC SNA ++D++ Sbjct: 895 SGCKSNAHYRLDKM 936 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPRH_ECOLI P0ADF3 Putative rho operon leader peptide (33 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.21, Method: Composition-based stats. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -3 Query: 13 PSCRFSSAYSPVTRQRKDMS 32 P C SA SP+ +K+ S Sbjct: 2591 PCCNTISAISPIEISKKNTS 2532 Score = 12.7 bits (21), Expect = 8.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +2 Query: 14 SCRFSSAYSPVTRQRK 29 SC S S + +QRK Sbjct: 6782 SCHRRSRPSNMLKQRK 6829 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTA_ECOLI P0ADV1 Lipopolysaccharide export system protein lptA (Precursor) (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTB_ECOLI P0A9V1 Lipopolysaccharide export system ATP-binding protein lptB (3.6.3.-) (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = +2 Query: 162 DEPFAGVDPISV 173 D PFAG ISV Sbjct: 953 DVPFAGRYQISV 988 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 1/30 (3%) Frame = +2 Query: 176 IKRIIEHLRDSGLGVLITDHNVRETL-AVC 204 IKR LR L ++ H+V ++ VC Sbjct: 2342 IKRFKVKLRLHRLQAFVSIHSVLNSIEVVC 2431 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTC_ECOLI P0ADV9 Lipopolysaccharide export system protein lptC (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.5, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +1 Query: 55 EGALSYRLIAQHVEYY 70 E SYR +Q E+Y Sbjct: 4276 ENCYSYR*KSQSREHY 4323 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTD_ECOLI P31554 LPS-assembly protein lptD (Organic solvent tolerance protein) (Precursor) (784 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +2 Query: 325 WRFNVDYTKVSDPSY 339 WR N+ Y S PS+ Sbjct: 6506 WRVNLLYAPPSSPSW 6550 Score = 19.2 bits (38), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 12/18 (66%) Frame = -3 Query: 180 WSVVGSEIIHDREEQVAE 197 W++ G+ +I R E VAE Sbjct: 788 WTLSGNPLIVPRVELVAE 735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTE_ECOLI P0ADC1 LPS-assembly lipoprotein lptE (Rare lipoprotein B) (Precursor) (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 8/17 (47%) Frame = -1 Query: 21 WHLRDTTQVPSTMKVMI 37 WH T P+T + I Sbjct: 4051 WHNHFTDHFPTTEGLEI 4001 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTF_ECOLI P0AF98 Lipopolysaccharide export system permease protein lptF (366 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 329 LWMWTVNLIY 338 +W W VNL+Y Sbjct: 6497 IWEWRVNLLY 6526 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -1 Query: 82 ESEITVMHACG 92 + E V+H CG Sbjct: 886 DGEALVLHHCG 854 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTG_ECOLI P0ADC6 Lipopolysaccharide export system permease protein lptG (360 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPTN_ECOLI P0AD89 Tryptophanase leader peptide (24 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPT_ECOLI P0AD86 Thr operon leader peptide (Thr operon attenuator) (21 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPW_ECOLI P0AD92 Trp operon leader peptide (14 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPXA_ECOLI P0A722 Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase (UDP-N-acetylglucosamine acyltransferase) (2.3.1.129) (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.53, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 13/28 (46%) Frame = +1 Query: 135 LANNATLAGHVSVDDFAIIGGMTAVHQF 162 LAN + G + +GGM ++Q Sbjct: 6313 LANKMAVKGSQVIKTMMKLGGMATINQV 6396 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 15/36 (41%), Gaps = 2/36 (5%) Frame = +2 Query: 27 GPF--CIVGPHVEIGEGTVLKSHVVVNGHTKIGRDN 60 GPF C+ G V +G TKI RDN Sbjct: 3332 GPFFLCLGGEFVHVG--------------TKINRDN 3397 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -1 Query: 159 VHQFCII 165 VH+FC+ Sbjct: 4789 VHRFCVF 4769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPXB_ECOLI P10441 Lipid-A-disaccharide synthase (2.4.1.182) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPXC_ECOLI P0A725 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase (3.5.1.-) (UDP-3-O-acyl-GlcNAc deacetylase) (Protein envA) (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPXD_ECOLI P21645 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase (2.3.1.-) (Protein firA) (Rifampicin resistance protein) (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%) Frame = +1 Query: 302 SSGIPLQPNKVWRKTAALVMNID 324 ++GIP Q ++ ALV ++ Sbjct: 1792 AAGIPTQMERLLSDNEALVKRLE 1860 Score = 16.5 bits (31), Expect = 7.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +3 Query: 268 GGASVINGHMEICDKVTV 285 G S + +++ CD VTV Sbjct: 3453 GRQSTLRIYIDNCDGVTV 3506 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPXH_ECOLI P43341 UDP-2,3-diacylglucosamine hydrolase (3.6.1.-) (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -1 Query: 71 VPCYFIHGNRDFLLGKRFA 89 VP YF H + + L F+ Sbjct: 5629 VPIYFFHRSSEHLKCSVFS 5573 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LPXK_ECOLI P27300 Tetraacyldisaccharide 4'-kinase (2.7.1.130) (Lipid A 4'-kinase) (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LRHA_ECOLI P36771 Probable HTH-type transcriptional regulator lrhA (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 11/14 (78%) Frame = -1 Query: 282 QAMESYHNPWQYSP 295 QAM+SYH+ Q+ P Sbjct: 6583 QAMKSYHD--QHDP 6548 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LRP_ECOLI P0ACJ0 Leucine-responsive regulatory protein (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 70 LDASLLVFV 78 L SLL+FV Sbjct: 530 LSLSLLIFV 504 Score = 15.0 bits (27), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 134 TLLRLP 139 TLLRLP Sbjct: 1440 TLLRLP 1423 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSPA_ECOLI P00804 Lipoprotein signal peptidase (3.4.23.36) (Prolipoprotein signal peptidase) (Signal peptidase II) (SPase II) (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 113 FDRLWHGFVV 122 DRLWH ++ Sbjct: 6801 LDRLWHDPII 6772 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRA_ECOLI P77257 Autoinducer 2 import ATP-binding protein lsrA (AI-2 import ATP-binding protein lsrA) (3.6.3.-) (EGO10A) (511 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRB_ECOLI P76142 Autoinducer 2-binding protein lsrB (AI-2-binding protein lsrB) (Precursor) (340 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 11/12 (91%) Frame = -2 Query: 69 SVSGQVQLINNF 80 S+SG+ +LINN+ Sbjct: 4485 SISGRERLINNW 4450 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 11/25 (44%) Frame = -2 Query: 121 PECRSYYINQGTPAQLGGMLVDMAA 145 P C SYY L ++++ A Sbjct: 5376 PSCYSYYALSPNQQILRAAIINLPA 5302 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +2 Query: 22 MNVQAAERIAFIPKLV 37 + VQAA + +P+L+ Sbjct: 1175 LEVQAARDDSALPRLI 1222 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = -1 Query: 322 VLLPERVI 329 +LLPERV+ Sbjct: 6079 LLLPERVV 6056 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRC_ECOLI P77672 Autoinducer 2 import system permease protein lsrC (AI-2 import system permease protein lsrC) (342 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRD_ECOLI P0AFS1 Autoinducer 2 import system permease protein lsrD (AI-2 import system permease protein lsrD) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +2 Query: 321 LARRANNP 328 +ARRA+NP Sbjct: 3092 VARRAHNP 3115 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRF_ECOLI P76143 Uncharacterized aldolase lsrF (4.1.2.-) (291 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRG_ECOLI P64461 Autoinducer 2-degrading protein lsrG (AI-2-degrading protein lsrG) (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.53, Method: Composition-based stats. Identities = 5/20 (25%), Positives = 13/20 (65%) Frame = -1 Query: 63 AFHKTTPHYKTCVAKLESLM 82 + + +PH TC ++++L+ Sbjct: 4654 SLNTCSPHPNTCPYRIDTLV 4595 Score = 16.2 bits (30), Expect = 2.0, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +2 Query: 29 SVQEEGN 35 SVQ++GN Sbjct: 983 SVQQQGN 1003 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRK_ECOLI P77432 Autoinducer 2 kinase lsrK (AI-2 kinase) (2.7.1.-) (530 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.85, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 13/19 (68%) Frame = -3 Query: 498 YQDSRDKWQAVYQDQLGLV 516 +QD R +Q++Y QLG+ Sbjct: 4964 FQDVR*TYQSLYGFQLGIF 4908 Score = 19.2 bits (38), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 17/31 (54%) Frame = +1 Query: 493 EKHELYQDSRDKWQAVYQDQLGLVDHGLTTS 523 E ++ ++ KW +Q+ L D+ +TTS Sbjct: 5965 EARKMAAENEGKWPEPIAEQIELTDYHVTTS 6057 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LSRR_ECOLI P76141 Transcriptional regulator lsrR (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = +1 Query: 280 VGVAGGENKAEAIAAAMKGGYIN 302 V +GG++K+ I K YIN Sbjct: 5596 VPSSGGKSKSVQIEIRRKRTYIN 5664 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LTAE_ECOLI P75823 Low specificity L-threonine aldolase (Low specificity L-TA) (4.1.2.5) (333 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = -1 Query: 36 VNALQDYAAELSGKEAAIFLP 56 VN DY + + IFLP Sbjct: 1906 VNPRYDYG*HIR*GSSLIFLP 1844 Score = 16.9 bits (32), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = +1 Query: 304 SPIVRLVTHLDVSREQL 320 +P+V ++ H+D + L Sbjct: 6529 APVVTIMGHVDHGKTSL 6579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LUXS_ECOLI P45578 S-ribosylhomocysteine lyase (4.4.1.21) (Autoinducer-2 production protein luxS) (AI-2 synthesis protein) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.16, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 2/23 (8%) Frame = +1 Query: 22 AKTMNTPHGD--AITVFDLRFCV 42 AK GD AIT ++LR+C Sbjct: 628 AKKAQCITGDNPAITAWNLRYCA 696 Score = 20.8 bits (42), Expect = 0.17, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 14/23 (60%) Frame = -3 Query: 58 HLFAGFMRNHLNGNGVEIIDISP 80 HL A H+NG+ + +IDI+ Sbjct: 3536 HLVANICT-HINGDAIAVIDINT 3471 Score = 20.4 bits (41), Expect = 0.23, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 17/28 (60%) Frame = +2 Query: 120 IPELNVYQCGTYQMHSLQEAQDIARSIL 147 +PE + + ++ LQE +D A+++L Sbjct: 5030 VPESELPEIDSFDKKRLQELRDRAQNVL 5113 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LYSD_ECOLI P78285 Probable lysozyme from lambdoid prophage DLP12 (3.2.1.17) (Lysis protein) (Muramidase) (Endolysin) (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.74, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +3 Query: 138 WTYAGGKQWKGLMTRREIEREVC 160 W Y K+W ++R I +C Sbjct: 1029 WVYNNKKKWLLRISRYNITIVLC 1097 Score = 18.5 bits (36), Expect = 0.80, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = -1 Query: 40 IPYKDIVGVWTVCHGHTGK 58 +PY+D V H H + Sbjct: 6505 LPYRDHSSVLLRVHFHDAR 6449 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LYSP_ECOLI P25737 Lysine-specific permease (489 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 17/35 (48%) Frame = -1 Query: 286 LVFQHAGLLSAAAVMNAVILTAVLSAGNSGMYAST 320 LV H G L ++ +I+ + +SG+Y T Sbjct: 874 LVLHHCGNL*P*CIVLTIIV*Q*FTNISSGLYPGT 770 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LYSQ_ECOLI P76159 Probable lysozyme from lambdoid prophage Qin (3.2.1.17) (Lysis protein) (Muramidase) (Endolysin) (177 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 7/14 (50%) Frame = -1 Query: 147 GRDCRIRSNNCYGQ 160 R CRI NCY Sbjct: 4825 NRLCRITFFNCYVH 4784 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -3 Query: 87 AWVERNIKVPLT 98 WV+R VPL Sbjct: 1217 VWVKRYRHVPLV 1182 Score = 16.5 bits (31), Expect = 3.4, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 5/5 (100%) Frame = +3 Query: 109 CPYNI 113 CPYN+ Sbjct: 3570 CPYNL 3584 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LYSR_ECOLI P03030 Transcriptional activator protein lysR (311 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 6/57 (10%) Frame = -1 Query: 53 RVRGR------LHPTVQGLRLFEEVQRSWYGLDRIVSAAESLREFRQGELSIACLPV 103 RVR R HP + L+E V R+ + E + L +ACLP+ Sbjct: 3076 RVRKRSK*YVDHHP--KASYLYELVPRTGF---------EPVSPIEHYHLKVACLPI 2939 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -3 Query: 169 VCVLPPGHPLA 179 CV+PP P A Sbjct: 6638 CCVIPPASPAA 6606 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 3/33 (9%) Frame = -2 Query: 176 HPLAVKKVLTPDDFQGENYI---SLSRTDSYRQ 205 HP+ V++PD + + RT++ +Q Sbjct: 6675 HPVFGFNVISPDMLCDPSCFPCRNFGRTNAIKQ 6577 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= LYXK_ECOLI P37677 L-xylulose/3-keto-L-gulonate kinase (L-xylulokinase) (2.7.1.53) (2.7.1.-) (3-dehydro-L-gulonate kinase) (498 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MAA_ECOLI P77791 Maltose O-acetyltransferase (2.3.1.79) (Maltose transacetylase) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MACA_ECOLI P75830 Macrolide-specific efflux protein macA (Precursor) (371 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = -3 Query: 295 QVHIQLTDVKNVLTIPLSALGD 316 +V +Q VK +PL LGD Sbjct: 1235 RVLVQ*VWVKRYRHVPLVPLGD 1170 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MACB_ECOLI P75831 Macrolide export ATP-binding/permease protein macB (3.6.3.-) (648 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -2 Query: 377 FNVYGMTFSEG 387 FN+Y TFS G Sbjct: 5637 FNLYRFTFSTG 5605 Score = 17.3 bits (33), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 315 YPGKDFGD 322 +PG D+GD Sbjct: 6130 FPGCDYGD 6107 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MAK_ECOLI P23917 Fructokinase (2.7.1.4) (D-fructose kinase) (Manno(fructo)kinase) (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -1 Query: 157 HNPLPWMDEDELRYR 171 H PLP+ D + R Sbjct: 6514 HPPLPYRDHSSVLLR 6470 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +3 Query: 288 DSSGVRGAAWL 298 DSSG + WL Sbjct: 2118 DSSGFQTGIWL 2150 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALE_ECOLI P0AEX9 Maltose-binding periplasmic protein (MMBP) (Maltodextrin-binding protein) (Precursor) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALF_ECOLI P02916 Maltose transport system permease protein malF (514 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -2 Query: 293 FLTVAVGMVLAC 304 FLTVAV + +C Sbjct: 4302 FLTVAVTIFPSC 4267 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALG_ECOLI P68183 Maltose transport system permease protein malG (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.51, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +2 Query: 35 VAISLRQGNFATGSLIPEQIS 55 V + + NF+TG + QIS Sbjct: 3371 VGTKINRDNFSTGKSLGTQIS 3433 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +2 Query: 161 GVIFAYLGGIALHVWT 176 G F LGG +HV T Sbjct: 3332 GPFFLCLGGEFVHVGT 3379 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALI_ECOLI P18811 Maltose regulon regulatory protein malI (342 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -1 Query: 215 FHSDWVLEC 223 +H WVL C Sbjct: 133 YHQRWVLSC 107 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALK_ECOLI P68187 Maltose/maltodextrin import ATP-binding protein malK (3.6.3.19) (371 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 14/31 (45%) Frame = +2 Query: 4 VQLQNVTKAWGEVVVSKDINLDIHEGEFVVF 34 + L TK E + +N+D G+F F Sbjct: 3923 IALATATKKKHEQEIEVRVNIDRKTGDFETF 4015 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -1 Query: 52 LETITSGDLFIGE 64 L T GD+FIG Sbjct: 979 LITACKGDIFIGS 941 Score = 16.5 bits (31), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +3 Query: 179 LHKRLG 184 LHKRLG Sbjct: 4812 LHKRLG 4829 Score = 16.5 bits (31), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 186 TMIYVTHD 193 TMI +THD Sbjct: 6567 TMINMTHD 6544 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALM_ECOLI P03841 Maltose operon periplasmic protein (Precursor) (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALQ_ECOLI P15977 4-alpha-glucanotransferase (2.4.1.25) (Amylomaltase) (Disproportionating enzyme) (D-enzyme) (694 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = -1 Query: 440 QNCGALRIDHVM 451 QNCGAL I+ M Sbjct: 4990 QNCGALFINFKM 4955 Score = 18.1 bits (35), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = +2 Query: 472 HYPVDDLLSILALE 485 + P DDLL++ +L+ Sbjct: 5153 NKPADDLLNLASLD 5194 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALT_ECOLI P06993 HTH-type transcriptional regulator malT (ATP-dependent transcriptional activator malT) (901 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 834 SPLTQREWQVLG 845 SP+ R+W LG Sbjct: 1334 SPINSRDWDALG 1369 Score = 18.5 bits (36), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -2 Query: 516 QMARQHDVWHYALWSLI 532 +A + WH++L SLI Sbjct: 4941 SIAVRVSAWHFSLSSLI 4891 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALY_ECOLI P23256 Protein malY (Cystathionine beta-lyase malY) (CBL) (4.4.1.8) (Beta-cystathionase) (Cysteine lyase) (Maltose regulon modulator) (390 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +1 Query: 296 KDNLTYIADKMNAAFPELNWQIP 318 KDN ++AD ++ F P Sbjct: 523 KDNKRFVADVVSRLFDRTTL*TP 591 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MALZ_ECOLI P21517 Maltodextrin glucosidase (3.2.1.20) (Alpha-glucosidase) (605 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.084 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.084, Method: Compositional matrix adjust. Identities = 15/38 (39%), Positives = 21/38 (55%) Frame = +1 Query: 565 EVVLPASPFLNAVQWQCKEGHGQLTDGILALPAISATV 602 E+ + A+P AV+W CK G +T L LP S T+ Sbjct: 319 ELFIEANPI--AVKWACKR-LGLITAETLRLPMTSLTL 423 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MANA_ECOLI P00946 Mannose-6-phosphate isomerase (5.3.1.8) (Phosphomannose isomerase) (PMI) (Phosphohexomutase) (391 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MANB_ECOLI P24175 Phosphomannomutase (PMM) (5.4.2.8) (456 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = +2 Query: 386 PVEAINRVEQHFSREALAVDR 406 PVE +NR + F L R Sbjct: 5606 PVEKVNRYKLKFVENELTSIR 5668 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MANC_ECOLI P24174 Mannose-1-phosphate guanylyltransferase (2.7.7.13) (GDP-mannose pyrophosphorylase) (GMPP) (GMP) (478 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 10/48 (20%), Positives = 21/48 (43%) Frame = -2 Query: 161 IRRGEVSAGEQDMVAFEVAQFVEKPNLETAQAYVASGEYYWNSGMFLF 208 IRR +VS+ + + N+ +A + ++ W+ F+F Sbjct: 5673 IRRIDVSSFSTNFNLYRFTFSTGARNI*SAPYFPLQRKFIWHLTWFMF 5530 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MAO1_ECOLI P26616 NAD-dependent malic enzyme (NAD-ME) (1.1.1.38) (565 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +3 Query: 59 RAWIQYQGFKTEI 71 R W GF+T I Sbjct: 2106 RCWFDSSGFQTGI 2144 Score = 17.3 bits (33), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -1 Query: 99 MMPVIYTPT 107 ++PV+Y PT Sbjct: 379 LIPVVYKPT 353 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MAO2_ECOLI P76558 NADP-dependent malic enzyme (NADP-ME) (1.1.1.40) (759 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.62, Method: Compositional matrix adjust. Identities = 11/23 (47%), Positives = 18/23 (78%) Frame = +2 Query: 104 IDVFDIEVDELDPDKFIEVVAAL 126 I++F IEV E+D ++ IE+ AA+ Sbjct: 4487 IELFRIEVPEID-EELIEIKAAI 4552 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MAOC_ECOLI P77455 Protein maoC (Phenylacetic acid degradation protein paaZ) (681 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.062 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.062, Method: Compositional matrix adjust. Identities = 15/64 (23%), Positives = 25/64 (39%) Frame = -1 Query: 275 EFALFIREVVREMTTKAGQKCTAIRRIIVPQALVNAVSDALVARLQKVVVGDPAQEGVKM 334 F +F+ ++ + K + RII+PQ +N S LV P ++ Sbjct: 4783 RFCVFVNNDRSYLSWRHSVK-NELSRIIIPQNDINTFSPQLVRHSLNTCSPHPNTCPYRI 4607 Query: 335 GALV 338 LV Sbjct: 4606 DTLV 4595 Score = 20.8 bits (42), Expect = 0.88, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 15/26 (57%) Frame = -3 Query: 355 AAGCEIRLGGQADLSAAGAFFPPTLL 380 +A C +R + ++SAA F +++ Sbjct: 5459 SANCCMRRSTEVEISAASNFMVTSVM 5382 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MARA_ECOLI P0ACH5 Multiple antibiotic resistance protein marA (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 12/16 (75%) Frame = -3 Query: 112 MQGESRFLHPLNHYNS 127 ++ + RFL L+H++S Sbjct: 1565 IKEDHRFLFILHHFDS 1518 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MARB_ECOLI P31121 Multiple antibiotic resistance protein marB (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MARC_ECOLI P0AEY1 UPF0056 inner membrane protein marC (221 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 10.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 10.0, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -2 Query: 163 IFFLVAV 169 FFLVAV Sbjct: 3954 CFFLVAV 3934 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MARR_ECOLI P27245 Multiple antibiotic resistance protein marR (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MASY_ECOLI P08997 Malate synthase A (MSA) (2.3.3.9) (533 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 15/25 (60%) Frame = +2 Query: 482 MLGEEMKVIASELGEERFSQGRFDD 506 M G ++ +++ELG ER +DD Sbjct: 4631 MRGARVQAVSNELGGERIDIVLWDD 4705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MASZ_ECOLI P37330 Malate synthase G (MSG) (2.3.3.9) (723 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.65, Method: Compositional matrix adjust. Identities = 14/43 (32%), Positives = 19/43 (44%) Frame = +1 Query: 528 AGANTAWVPSPTAATLHALHYHQTNVQSVQANIAQTEFNAEFE 570 A N P P A + YH T Q +A A+ E +A+ E Sbjct: 5980 AAENEGKWPEPIAEQIELTDYHVTTSQHARA--AEDENDAKVE 6102 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MATA_ECOLI P71301 Probable HTH-type transcriptional regulator matA homolog (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = -1 Query: 99 EALANYWYYNS 109 + N+WY+N+ Sbjct: 4531 QLFVNFWYFNA 4499 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MATB_ECOLI P0AAA3 Fimbrillin matB homolog (Precursor) (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MATC_ECOLI P77188 Uncharacterized protein matC (Precursor) (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.073 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.073, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 19/36 (52%) Frame = -3 Query: 40 TIKNSTDSGRLINIRLERLSSPLDDGQVISMDKPDE 75 TIKN + + IR+ +L PLD +V P+E Sbjct: 2714 TIKN--NVANIAVIRVIKLPEPLDPNRVEEAPAPNE 2613 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MAZG_ECOLI P0AEY3 Protein mazG (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MBHA_ECOLI Q47154 Putative protein mbhA (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 70 MFERGSAKIMPFF 82 +FE+ I PFF Sbjct: 3304 LFEKNDWAIRPFF 3342 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MBHL_ECOLI P0ACD8 Hydrogenase-1 large chain (HYD1) (1.12.99.6) (Membrane-bound hydrogenase 1 large subunit) (NiFe hydrogenase) (597 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.41, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 7/32 (21%) Frame = +2 Query: 69 WAFVERICGVCT-------GVHALASVYAIED 93 AF CGVCT GV LA + ++D Sbjct: 5201 MAFKLAACGVCTLEDLAEQGVSDLADIEELDD 5296 Score = 19.2 bits (38), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +1 Query: 178 QLGIFRNGYWGHPQYKL 194 +LGI N HP ++L Sbjct: 1915 RLGITENQVLNHPLFEL 1965 Score = 18.9 bits (37), Expect = 3.2, Method: Compositional matrix adjust. Identities = 9/12 (75%), Positives = 9/12 (75%) Frame = -1 Query: 260 VQSIITRTADFI 271 V SII TADFI Sbjct: 1156 VLSIIAITADFI 1121 Score = 18.5 bits (36), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -1 Query: 106 IRNIMLATLWCHDHLVHF 123 +R+++ ATLW H F Sbjct: 5425 LRSLLPATLWLHLSCCSF 5372 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MBHM_ECOLI P0ACE0 Hydrogenase-2 large chain (HYD2) (1.12.99.6) (Membrane-bound hydrogenase 2 large subunit) (NiFe hydrogenase) (Precursor) (567 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +2 Query: 61 CGVCT 65 CGVCT Sbjct: 5222 CGVCT 5236 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MBHS_ECOLI P69739 Hydrogenase-1 small chain (HYD1) (1.12.99.6) (Membrane-bound hydrogenase 1 small subunit) (NiFe hydrogenase) (Precursor) (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = +3 Query: 273 NACSSTRWNDGV 284 N +RWNDG Sbjct: 210 NGQCGSRWNDGA 245 Score = 16.5 bits (31), Expect = 10.0, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 13/28 (46%) Frame = -1 Query: 107 DIITQYNGKYILAVEGNPPLGEQGMFCI 134 ++IT G + P+G + + CI Sbjct: 982 NLITACKGDIFIGSVPFYPIGSERLICI 899 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MBHT_ECOLI P69741 Hydrogenase-2 small chain (HYD2) (1.12.99.6) (Membrane-bound hydrogenase 2 small subunit) (NiFe hydrogenase) (Precursor) (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -1 Query: 268 TYGNCSTLQFC 278 T+ NC +FC Sbjct: 4807 TFFNCYVHRFC 4775 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCBA_ECOLI P0AAX6 Uncharacterized protein mcbA (MqsR-controlled colanic acid and biofilm protein A) (Precursor) (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.34, Method: Composition-based stats. Identities = 8/20 (40%), Positives = 14/20 (70%) Frame = +2 Query: 40 VSATGASNLSDLEDKLAEKA 59 ++ G S+L+D+E+ EKA Sbjct: 5246 LAEQGVSDLADIEELDDEKA 5305 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCBR_ECOLI P76114 HTH-type transcriptional regulator mcbR (221 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 169 LYEAIN 174 LYEAIN Sbjct: 5448 LYEAIN 5431 Score = 15.8 bits (29), Expect = 9.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -3 Query: 199 GCRHCLAEI 207 GC C A+I Sbjct: 3806 GCPVCFADI 3780 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCP1_ECOLI P02942 Methyl-accepting chemotaxis protein I (MCP-I) (Serine chemoreceptor protein) (551 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.44, Method: Compositional matrix adjust. Identities = 37/157 (23%), Positives = 64/157 (40%), Gaps = 1/157 (0%) Frame = +1 Query: 39 NFTVLQTIRQQQSTLNGSWVALLQTRNTLNRAGIRYMMDQNNIGSGSTVAELMESASISL 98 N+ VL+ R S ++G + + +N ++M++ +E+A I Sbjct: 1669 NYLVLE-FRNDTSAMDGQRIQAFDRKGMINNKFNHFIMNR------------LEAAGIP- 1806 Query: 99 KQAEKNWADYEALPRDPRQSTAAAAEIKRNYDIYHNALAELIQLLGAGKINEFFDQPTQG 158 Q E+ +D EAL + R + RN L++ LG + N+ + P Sbjct: 1807 TQMERLLSDNEALVK--RLEMIPIECVIRN-----RTAGSLVKRLGITE-NQVLNHPL-- 1956 Query: 159 YQDGFEKQYVAYMEQNDRLHDIAVSDNNASYSQAM-W 194 FE +ND+LHD VS+ +Y +A W Sbjct: 1957 ----FE-----LFLKNDQLHDPIVSE---AYCKAFGW 2031 Score = 18.1 bits (35), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 51 STLNGSWVAL 60 S LNG+W+ Sbjct: 360 SPLNGNWIGF 331 Score = 17.3 bits (33), Expect = 8.8, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -1 Query: 524 TSAVVKTVTPA 534 TSA + TVTP+ Sbjct: 3523 TSAHISTVTPS 3491 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCP2_ECOLI P07017 Methyl-accepting chemotaxis protein II (MCP-II) (Aspartate chemoreceptor protein) (553 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCP3_ECOLI P05704 Methyl-accepting chemotaxis protein III (MCP-III) (Ribose and galactose chemoreceptor protein) (546 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.081 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.081, Method: Compositional matrix adjust. Identities = 11/14 (78%), Positives = 12/14 (85%) Frame = -3 Query: 29 LVLFALSSALAGYF 42 L LFA SSALAG+F Sbjct: 5777 LSLFACSSALAGFF 5736 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCP4_ECOLI P07018 Methyl-accepting chemotaxis protein IV (MCP-IV) (Dipeptide chemoreceptor protein) (533 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.9, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 12/28 (42%) Frame = -3 Query: 166 WQLEINHVLEAASAQSQRNYQISALVFI 193 W + H A A +NYQ + F+ Sbjct: 5117 WSVHSGHDHAALEASFCQNYQFPVIRFL 5034 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCRA_ECOLI P24200 5-methylcytosine-specific restriction enzyme A (3.1.21.-) (EcoKMcrA) (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.77, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 16/25 (64%), Gaps = 3/25 (12%) Frame = -2 Query: 34 GDRNKDYNIALDY---IIERLVDSG 55 GDR + N+A+DY +IE L+ S Sbjct: 6303 GDRFTNDNVAVDYSNWLIETLL*SA 6229 Score = 17.3 bits (33), Expect = 3.2, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 14/25 (56%) Frame = +2 Query: 47 IIERLVDSGVSQVVVYLASSSVRKH 71 I ERL S + ++++ SSV H Sbjct: 1628 IAERLKLSTLLKILIIWCWSSVTIH 1702 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 14/19 (73%), Gaps = 1/19 (5%) Frame = +2 Query: 124 ILINVP-GIYSDSFWASII 141 ++INV +SD+ W+S++ Sbjct: 3038 MMINVLFATFSDAGWSSLV 3094 Score = 16.5 bits (31), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -3 Query: 156 SLLNMRVSKLIKKTLSQPE 174 SLL +S + K+ QP+ Sbjct: 2474 SLLCASISSIAKEDCKQPQ 2418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCRB_ECOLI P15005 5-methylcytosine-specific restriction enzyme B (3.1.21.-) (EcoKMcrBC) (459 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.017 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.8 bits (55), Expect = 0.017, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 1/31 (3%) Frame = -1 Query: 382 CQKMNELNQEIS-KEATILGKGFRIGHSYFC 411 C + +++ IS T+L F GH YFC Sbjct: 1363 CIPITAVDRAISYSNVTLLSVTFSYGHPYFC 1271 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 357 PGFDTPQFRNFLLNKK 372 P P+FR FLL +K Sbjct: 3268 PVVSNPEFRGFLLFEK 3315 Score = 16.9 bits (32), Expect = 8.7, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = -1 Query: 86 NEPHAQWQFSSD 97 ++PH QW ++D Sbjct: 2014 SKPH*QWDRAAD 1979 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MCRC_ECOLI P15006 Protein mcrC (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.17 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.17, Method: Compositional matrix adjust. Identities = 14/54 (25%), Positives = 25/54 (46%) Frame = -1 Query: 200 LYQKFLYEFCRRELTSANTTRSYLKWDASSISDQSLNLLPRMETDITIRSSEKI 253 + +++ FC N RSYL W S ++ S ++P + DI S + + Sbjct: 4804 FFNCYVHRFC----VFVNNDRSYLSWRHSVKNELSRIIIP--QNDINTFSPQLV 4661 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = +2 Query: 279 LYQLMNYLWSLKPENGE 295 L Q +++ W L+P G Sbjct: 6734 LRQQISWFWLLRPMMGS 6784 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDAB_ECOLI P0AEY5 Modulator of drug activity B (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.64, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +3 Query: 16 SNGQLNDTLTEVADGTLRDLGH 37 S L LTE+ ++ LGH Sbjct: 3360 SLSTLEQKLTEIISAPVKALGH 3425 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +3 Query: 99 RTRKDPSKKYGSGG 112 R D +YGSGG Sbjct: 6471 RRSTDE*SRYGSGG 6512 Score = 16.2 bits (30), Expect = 5.9, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 11/22 (50%) Frame = +3 Query: 166 FIANDVIKMPDVPRYTEEYRKH 187 FIA + ++ P+Y R H Sbjct: 21 FIARNGGEISSNPQYHRVKRSH 86 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDFA_ECOLI P0AEY8 Multidrug translocase mdfA (Chloramphenicol resistance pump cmr) (410 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDH_ECOLI P61889 Malate dehydrogenase (1.1.1.37) (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDLA_ECOLI P77265 Multidrug resistance-like ATP-binding protein mdlA (3.6.3.44) (590 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 554 HDVLAQQSGWY 564 H+VL QQ W+ Sbjct: 6725 HEVLRQQISWF 6757 Score = 18.9 bits (37), Expect = 3.3, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 17/29 (58%) Frame = +3 Query: 489 VNAEILILDDALSAVDGRTEHQILHNLRQ 517 V+ E++I+ VDG+ E L N+R+ Sbjct: 3720 VDGEMIIV-----TVDGKDEVFALSNIRK 3791 Score = 17.7 bits (34), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +1 Query: 197 NDRTQESLTSIRMIKAFG 214 ND+ + + S KAFG Sbjct: 1975 NDQLHDPIVSEAYCKAFG 2028 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDLB_ECOLI P0AAG5 Multidrug resistance-like ATP-binding protein mdlB (3.6.3.44) (593 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.14, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = +1 Query: 447 WQALETVQLAELARSMSDGIYT 468 W +E +LAEL R + +YT Sbjct: 1591 WSHIEMQKLAELYRGKAKTVYT 1656 Score = 18.5 bits (36), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 10/13 (76%) Frame = +1 Query: 451 ETVQLAELARSMS 463 ETV +AELA M+ Sbjct: 6292 ETVTVAELANKMA 6330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTA_ECOLI P76397 Multidrug resistance protein mdtA (Multidrug transporter mdtA) (Precursor) (415 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.4, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -1 Query: 296 FNNQDDALFPNQ 307 F Q ALFP+Q Sbjct: 6433 FLQQPVALFPDQ 6398 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTB_ECOLI P76398 Multidrug resistance protein mdtB (Multidrug transporter mdtB) (1040 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 3.0, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 19/28 (67%) Frame = -3 Query: 479 AILISAVVSLTLTPMMCARMLSQESLRK 506 AIL ++ ++T++PM+ +R+ + L K Sbjct: 6329 AILFASSATVTVSPMITSRLTTATGLLK 6246 Score = 18.1 bits (35), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 460 FMGDIVGRLF 469 F+ D+V RLF Sbjct: 538 FVADVVSRLF 567 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTC_ECOLI P76399 Multidrug resistance protein mdtC (Multidrug transporter mdtC) (1025 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.56, Method: Compositional matrix adjust. Identities = 27/122 (22%), Positives = 48/122 (39%), Gaps = 6/122 (4%) Frame = -2 Query: 694 NSDQQDNGAEMNLVYDRDTMARLGIDVQAANSLLNNAFGQRQISTIY---QPMN--QYKV 748 NS +++N A V +++R I++ A + F + I QP++ + Sbjct: 5022 NSSKEENSASTKTVAHSSSISRCSINISIAVRVSAWHFSLSSLIVITLSSQPLS*ETKRT 4843 Query: 749 VMEVDPRYTQDISALEKMFVINNEGKAIPLSYFAKWQPANA-PLSVNHQGLSAASTISFN 807 + P ++ + MF++ S + A A L N GLS+ TIS Sbjct: 4842 F*PLRPIACAELPSSTAMFIVFASS-----STTIEATSAGAIALRTN*AGLSSHKTISIR 4678 Query: 808 LP 809 P Sbjct: 4677 SP 4672 Score = 18.5 bits (36), Expect = 6.5, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +1 Query: 841 TAQVFQETMNSQVIL 855 TAQ+ E M +VIL Sbjct: 6409 TAQLVAEEMGHKVIL 6453 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTD_ECOLI P36554 Putative multidrug resistance protein mdtD (471 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.6, Method: Compositional matrix adjust. Identities = 18/64 (28%), Positives = 23/64 (35%), Gaps = 20/64 (31%) Frame = -1 Query: 45 LHMHMVIVSYVLTVAVMLPASGWL------------------ADKVGVRNIF--FTAIVL 84 LH + L + +LPA+ WL AD G N F F I L Sbjct: 5464 LHQQTAV*GDQLKLRSLLPATLWLHLSCCSFLLQLLRIIAKPADIAGCHN*FTGFFII*L 5285 Query: 85 FTLG 88 F +G Sbjct: 5284 FNIG 5273 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTE_ECOLI P37636 Multidrug resistance protein mdtE (Precursor) (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTF_ECOLI P37637 Multidrug resistance protein mdtF (1037 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTG_ECOLI P25744 Multidrug resistance protein mdtG (408 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = -1 Query: 176 FITASVLILCFFVTLFC 192 FITA + F+TLFC Sbjct: 607 FITAHLA----FITLFC 569 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTH_ECOLI P69367 Multidrug resistance protein mdtH (402 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTI_ECOLI P69210 Spermidine export protein mdtI (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.50, Method: Composition-based stats. Identities = 8/21 (38%), Positives = 14/21 (66%), Gaps = 1/21 (4%) Frame = +3 Query: 89 NRKGWIGLVLLLAG-MIMVKL 108 NR+ W G++ + G MI+V + Sbjct: 3687 NRRKWQGIIKAVDGEMIIVTV 3749 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTJ_ECOLI P69212 Spermidine export protein mdtJ (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.3, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = -3 Query: 63 LWEGIGILFIT 73 + IG+LF++ Sbjct: 5840 FFSTIGLLFVS 5808 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTK_ECOLI P37340 Multidrug resistance protein mdtK (Multidrug-efflux transporter) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = -1 Query: 161 MVMGFIGLLVNIPVNYIFIYG 181 + +GF+ L PVN + YG Sbjct: 1945 LALGFL*SLTASPVNPRYDYG 1883 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTL_ECOLI P31462 Multidrug resistance protein mdtL (391 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 269 TLMITSQVLFLAAGI 283 M+TS +LFL A + Sbjct: 5405 NFMVTSVMLFLPATV 5361 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTM_ECOLI P39386 Multidrug resistance protein mdtM (410 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTN_ECOLI P32716 Multidrug resistance protein mdtN (343 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 3/32 (9%) Frame = -1 Query: 28 FVIWR---VDSAPSTNDAYASADTIDVVPEVS 56 F W D P+T S +ID+ P+ + Sbjct: 4060 FTCWHNHFTDHFPTTEGLEISCFSIDINPDFN 3965 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTO_ECOLI P32715 Multidrug resistance protein mdtO (683 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +1 Query: 541 IRIGLHAAFNACEEMCQRVA 560 I + + A E+CQRVA Sbjct: 202 ISVTANVAAGGMTELCQRVA 261 Score = 18.5 bits (36), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = -1 Query: 160 IVVGLYPTLLMTLIGVLWFPS 180 I GLYP L G+ W+P+ Sbjct: 796 ISSGLYPGTL**YQGLNWWPN 734 Score = 18.5 bits (36), Expect = 4.5, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 149 PEVVVRLTLWCIVVGL 164 PE VVRL ++GL Sbjct: 28 PETVVRLAQIPNIIGL 75 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTP_ECOLI P32714 Multidrug resistance outer membrane protein mdtP (Precursor) (488 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MDTQ_ECOLI P33369 Putative multidrug resistance outer membrane protein mdtQ (Precursor) (478 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MELB_ECOLI P02921 Melibiose carrier protein (Thiomethylgalactoside permease II) (Melibiose permease) (Na+ (Li+)/melibiose symporter) (Melibiose transporter) (469 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.6, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = -3 Query: 442 HLLDKYRKVPPEPVHADIP 460 HL +YR PV D+P Sbjct: 5294 HLALQYRLNR*HPVRQDLP 5238 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 16/34 (47%) Frame = -2 Query: 184 AFFIVSTIITLRNVHEVFSSDNQPSAEGSHLTLK 217 FF+V+ + N ++FS S E + T + Sbjct: 3954 CFFLVAVANAISNASKIFSRGRDFSLETASTTAR 3853 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -2 Query: 257 VIGDADLFPY 266 VIG DLF Y Sbjct: 6042 VIGQFDLFGY 6013 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MELR_ECOLI P0ACH8 Melibiose operon regulatory protein (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 12/17 (70%) Frame = +1 Query: 133 FEVRRWQQELNSPNEQI 149 E+RR + +N+PN ++ Sbjct: 5632 IEIRRKRTYINTPNAEL 5682 Score = 18.5 bits (36), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = +2 Query: 13 KQTRSPLSLYS 23 KQ +SPLSL S Sbjct: 6818 KQRKSPLSLLS 6850 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +2 Query: 166 LSGWE 170 LSGWE Sbjct: 4862 LSGWE 4876 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MENA_ECOLI P32166 1,4-dihydroxy-2-naphthoate octaprenyltransferase (DHNA-octaprenyltransferase) (2.5.1.-) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 254 WLFLLAA 260 WL LLAA Sbjct: 542 WLMLLAA 562 Score = 16.2 bits (30), Expect = 9.8, Method: Compositional matrix adjust. Identities = 14/55 (25%), Positives = 22/55 (40%) Frame = +2 Query: 22 PLAFAAIIVGTALAWWQGHFDPLVALLALITAGLLQILSNLANDYGDAVKGSDKP 76 P + A I V T DP+ A + + A + + + L + D V D P Sbjct: 4559 PASRAKIAVKTN----DKRIDPIGACVGMRGARVQAVSNELGGERIDIVLWDDNP 4711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MENB_ECOLI P0ABU0 Naphthoate synthase (4.1.3.36) (Dihydroxynaphthoic acid synthetase) (DHNA synthetase) (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = -1 Query: 226 PMALRCLKAAL 236 PM LRCLKA + Sbjct: 1846 PM-LRCLKAVV 1817 Score = 16.9 bits (32), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = +2 Query: 5 DEAMLYAPVEWHDC 18 D + +P +W+DC Sbjct: 1784 DLKLRVSPHKWNDC 1825 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MENC_ECOLI P29208 o-succinylbenzoate synthase (OSB synthase) (OSBS) (4.2.1.113) (4-(2'-carboxyphenyl)-4-oxybutyric acid synthase) (o-succinylbenzoic acid synthase) (320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/31 (25%), Positives = 15/31 (48%) Frame = +3 Query: 44 EISPLPGFSQETWEEAQSVLLAWVNNWLAGD 74 ++SPL + + LL W N+W+ + Sbjct: 951 KMSPLQAVIRLVCNSKEISLL*W*NHWVYNN 1043 Score = 16.5 bits (31), Expect = 7.3, Method: Compositional matrix adjust. Identities = 8/42 (19%), Positives = 16/42 (38%), Gaps = 16/42 (38%) Frame = +2 Query: 45 ISPLPGFSQETWEEAQSVLLA----------------WVNNW 70 + PL G + W + +S ++ W++NW Sbjct: 2015 VKPLAGLVKRIWRK*KS*VIKLMMYSVNCLTMLV*F*WISNW 2140 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MEND_ECOLI P17109 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (SEPHCHC synthase) (2.2.1.9) (Menaquinone biosynthesis protein menD) (556 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 137 PRPTQDIP 144 P+P+ DIP Sbjct: 2815 PKPSSDIP 2838 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MENE_ECOLI P37353 2-succinylbenzoate--CoA ligase (6.2.1.26) (o-succinylbenzoyl-CoA synthetase) (OSB-CoA synthetase) (451 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.58 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.58, Method: Compositional matrix adjust. Identities = 12/43 (27%), Positives = 22/43 (51%) Frame = +1 Query: 220 HASLVPTQLWRLLVNRSSVSLKAVLLGGAAIPVELTEQAREQG 262 A+ +PTQ+ RLL + ++ + + IP+E + R G Sbjct: 1789 EAAGIPTQMERLLSDNEALVKRLEM-----IPIECVIRNRTAG 1902 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -3 Query: 129 ATWQPTRLCSMTLTSGST 146 A W + +C MT +S +T Sbjct: 6815 ACWMASIVCGMTPSSAAT 6762 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MENF_ECOLI P38051 Menaquinone-specific isochorismate synthase (5.4.4.2) (Isochorismate mutase) (431 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MENH_ECOLI P37355 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase (SHCHC synthase) (4.2.99.20) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MEPA_ECOLI P0C0T5 Penicillin-insensitive murein endopeptidase (3.4.24.-) (D-alanyl-D-alanine-endopeptidase) (DD-endopeptidase) (Precursor) (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.030 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.030, Method: Compositional matrix adjust. Identities = 18/56 (32%), Positives = 24/56 (42%) Frame = -2 Query: 101 PAGGRFNGGHASHQTGLDVDIFLQLPKTRWTSAQLLRPQALDLVSRDGKHVVSTLW 156 P R + H L+ +L K +SA LL P+ L S +VVST W Sbjct: 5259 PCSARSSSVQTPHAANLNAISRSKLAKFNKSSAGLLSPK---LSSFFRANVVSTFW 5101 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= META_ECOLI P07623 Homoserine O-succinyltransferase (2.3.1.46) (Homoserine O-transsuccinylase) (HTS) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -1 Query: 293 VYQITPYDLRHMNPT 307 V +I DLR M+PT Sbjct: 3142 VSRI*TSDLRVMSPT 3098 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = +2 Query: 17 EENVFVMTTSRASGQEI 33 E+N + + SG+EI Sbjct: 6890 EQNYLSTVSCQKSGEEI 6940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METB_ECOLI P00935 Cystathionine gamma-synthase (CGS) (2.5.1.48) (O-succinylhomoserine (thiol)-lyase) (386 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METC_ECOLI P06721 Cystathionine beta-lyase metC (CBL) (4.4.1.8) (Beta-cystathionase) (Cysteine lyase) (395 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.58 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.58, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -2 Query: 126 GVTTSWFDPLIGADIVKH 143 G+ W DP+IG + H Sbjct: 6804 GLDRLWHDPIIGRNNQNH 6751 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METE_ECOLI P25665 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase (2.1.1.14) (Methionine synthase, vitamin-B12 independent isozyme) (Cobalamin-independent methionine synthase) (753 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 14/20 (70%) Frame = +2 Query: 260 QGLHVDLVHGKDDVAELHKR 279 QG+ + L HG D+A++ ++ Sbjct: 650 QGIILPLQHGTYDIAQVSQQ 709 Score = 18.1 bits (35), Expect = 5.9, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = +2 Query: 151 LALGHKVKPVLLGPVTWLWL 170 L L V VL ++W WL Sbjct: 6704 LRLHQCVHEVLRQQISWFWL 6763 Score = 18.1 bits (35), Expect = 6.0, Method: Compositional matrix adjust. Identities = 16/68 (23%), Positives = 28/68 (41%) Frame = +1 Query: 33 REELLAVGRELRARHWDQQKQAGIDLLPVGDFAWYDHVLTTSLLLGNVPARHQNKDGSVD 92 REE AVGR+ + + Q+ + V +T + L + + GS Sbjct: 6184 REEARAVGRKSKRKPSTLQQSFNKPVAVVNRDVIIGETVTVAELANKMAVK-----GSQV 6348 Query: 93 IDTLFRIG 100 I T+ ++G Sbjct: 6349 IKTMMKLG 6372 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METF_ECOLI P0AEZ1 5,10-methylenetetrahydrofolate reductase (1.5.1.20) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.62, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 12/23 (52%) Frame = -1 Query: 49 SSLKPKFVSVTYGANSGERDRTH 71 S L P F++ Y + R +TH Sbjct: 2245 SDLYPSFLTSFYPTSDSHRGKTH 2177 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +3 Query: 103 ARDYWNNG 110 ARDY++NG Sbjct: 192 ARDYFSNG 215 Score = 16.5 bits (31), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = +1 Query: 43 NSIDRLSSLKP 53 +++RLS +KP Sbjct: 88 GNLERLSMIKP 120 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METH_ECOLI P13009 Methionine synthase (2.1.1.13) (5-methyltetrahydrofolate--homocysteine methyltransferase) (Methionine synthase, vitamin-B12-dependent) (MS) (1227 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.045 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 26.2 bits (56), Expect = 0.045, Method: Compositional matrix adjust. Identities = 12/29 (41%), Positives = 14/29 (48%) Frame = +1 Query: 548 DIKRELPHALISGGVSNVSFSFRGNDPVR 576 D KRE PH SG SN + +P R Sbjct: 862 DAKREPPHRRSSGCKSNAHYRLDKMEPSR 948 Score = 21.2 bits (43), Expect = 1.4, Method: Composition-based stats. Identities = 11/26 (42%), Positives = 17/26 (65%), Gaps = 1/26 (3%) Frame = +2 Query: 1041 YCLADFVAPKL-SGKADYIGAFAVTG 1065 +CL FV PKL GK + G+ +++G Sbjct: 6575 HCLIAFVRPKLRQGKQE--GSHSISG 6646 Score = 19.6 bits (39), Expect = 4.2, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 1/23 (4%) Frame = +3 Query: 925 VAHRL-GVQEVEASIETLRNYID 946 + H+L GV+ + TLR YID Sbjct: 3417 LGHKLVGVEFIPGRQSTLRIYID 3485 Score = 18.1 bits (35), Expect = 9.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -1 Query: 55 LLVLSKPEVIAAIHN 69 L +++KP IA HN Sbjct: 5359 LRIIAKPADIAGCHN 5315 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METI_ECOLI P31547 D-methionine transport system permease protein metI (217 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/26 (23%), Positives = 12/26 (46%) Frame = +1 Query: 8 LLVRGVWETLAMTFVSGFFGFVIGLP 33 + R W+T+ + + G + G P Sbjct: 700 ITARCRWQTVRHSATNSTLGTIKGFP 777 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METJ_ECOLI P0A8U6 Met repressor (Met regulon regulatory protein metJ) (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.3, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +3 Query: 41 RTRRQVNNLRHATNSEL 57 + RRQ RH S+L Sbjct: 4536 KLRRQFVTQRHVLKSQL 4586 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METK_ECOLI P0A817 S-adenosylmethionine synthetase (2.5.1.6) (Methionine adenosyltransferase) (AdoMet synthetase) (MAT) (384 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.32, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 15/21 (71%) Frame = +2 Query: 23 ISDAVLDAILEQDPKARVACE 43 I+ ++ ++LEQ+ + V+C+ Sbjct: 6860 INQTLIQSVLEQNYLSTVSCQ 6922 Score = 20.4 bits (41), Expect = 0.57, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 15/28 (53%) Frame = +1 Query: 2 AKHLFTSESVSEGHPDKIADQISDAVLD 29 A+ SES E + KIAD S +++ Sbjct: 5752 AEEQAKSESAKEANAKKIADTKSKPIVE 5835 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METN_ECOLI P30750 Methionine import ATP-binding protein metN (3.6.3.-) (343 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.86, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 15/24 (62%) Frame = +3 Query: 255 ERLQAEPFTDCVPMLRLEFTGQSV 278 ++++ +P+ C P FTG++V Sbjct: 1848 KKIRDDPYRMCHP*SYRGFTGEAV 1919 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METQ_ECOLI P28635 D-methionine-binding lipoprotein metQ (Precursor) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 12/17 (70%) Frame = +1 Query: 37 VIVGAEQQVAEVAQKVA 53 VI+G VAE+A K+A Sbjct: 6280 VIIGETVTVAELANKMA 6330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= METR_ECOLI P0A9F9 HTH-type transcriptional regulator metR (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 7/15 (46%) Frame = -1 Query: 286 RNHACDHLPFVKSAE 300 NH DH P + E Sbjct: 4048 HNHFTDHFPTTEGLE 4004 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 19/39 (48%) Frame = +2 Query: 208 PAGVSPSLKSVDNTLLLIQMVAARMGIAALPHWVVESFE 246 P+ ++ LK +TLL I ++ + W+V F+ Sbjct: 1619 PSCIAERLKL--STLLKILIIWCWSSVTIHQQWMVNVFK 1729 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MFD_ECOLI P30958 Transcription-repair-coupling factor (TRCF) (3.6.1.-) (ATP-dependent helicase mfd) (1148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MGLA_ECOLI P0AAG8 Galactose/methyl galactoside import ATP-binding protein mglA (3.6.3.17) (506 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 13/21 (61%) Frame = -3 Query: 264 VILEVRNLTSLRQPSIRDVSF 284 +I+ R+ +R PSI DVS Sbjct: 1754 LIIPFRSKA*IR*PSIADVSL 1692 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MGLC_ECOLI P23200 Galactoside transport system permease protein mglC (336 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MGRB_ECOLI P64512 Protein mgrB (Precursor) (47 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.1 bits (22), Expect = 7.2, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -1 Query: 34 FFSGIC 39 FF+G C Sbjct: 4303 FFNGSC 4286 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MGSA_ECOLI P0A731 Methylglyoxal synthase (MGS) (4.2.3.3) (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.88 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.88, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -1 Query: 22 CKQMLMSWVERHQP 35 C Q + S+ ++H P Sbjct: 6589 CNQAMKSYHDQHDP 6548 Score = 15.8 bits (29), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -3 Query: 20 DHCKQMLM 27 DHC Q L+ Sbjct: 4838 DHCAQSLV 4815 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPA_ECOLI P77397 3-(3-hydroxy-phenyl)propionate/3-hydroxycinnamic acid hydroxylase (3-HPP hydroxylase) (3-HCI hydroxylase) (1.14.13.n3) (554 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.036 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.036, Method: Compositional matrix adjust. Identities = 29/114 (25%), Positives = 46/114 (40%), Gaps = 1/114 (0%) Frame = +1 Query: 136 LFSRELEAFSQQDDEVTL-HLKTAEGQREIVKAQWLVACDGGASFVRRTLNVPFEGKTAP 194 L E + +QQ+ E+ L HLK GQ V + + +R TLNVP G + Sbjct: 5467 LKKSETSSVTQQEKEILLAHLKHEPGQ---VPNKLTLQ-----RKIRSTLNVPSSGGKSK 5622 Query: 195 NQWIVVDIANDPLSTPHIYLCCDPVRPYVSAALPHAVRRFEFMVMPGETEEQLR 248 + I + ++TP+ L A A + + P + EEQ + Sbjct: 5623 SVQIEIRRKRTYINTPNAELANTE-----KAKTEQAKQVEQVEKKPAKAEEQAK 5769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPB_ECOLI P0ABR9 2,3-dihydroxyphenylpropionate/2,3-dihydroxicinnamic acid 1,2-dioxygenase (1.13.11.16) (314 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPC_ECOLI P77044 2-hydroxy-6-oxononadienedioate/2-hydroxy-6-oxononatrienedioate hydrolase (3.7.1.n1) (2-hydroxy-6-oxonona-2,4-diene-1,9-dioic acid 5,6-hydrolase) (2-hydroxy-6-ketonona-2,4-diene-1,9-dioic acid 5,6-hydrolase) (2-hydroxy-6-oxonona-2,4,7-triene-1,9-dioic acid 5,6-hydrolase) (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = -3 Query: 26 GKTLRIHFNDCGQG 39 + L +HF+ C Q Sbjct: 4862 AEKLSVHFDHCAQS 4821 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = -1 Query: 23 EEAGKTLRIHFND 35 + + LR+HF+D Sbjct: 6493 DHSSVLLRVHFHD 6455 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPD_ECOLI P77608 2-keto-4-pentenoate hydratase (4.2.1.80) (2-hydroxypentadienoic acid hydratase) (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +1 Query: 13 LRRAAEQGEAIAPLRDL 29 LRR E EA+ RD+ Sbjct: 6451 LRRENELEEALMSDRDM 6501 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPE_ECOLI P51020 4-hydroxy-2-oxovalerate aldolase (HOA) (4.1.3.39) (4-hydroxy-2-keto-pentanoic acid aldolase) (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPF_ECOLI P77580 Acetaldehyde dehydrogenase (1.2.1.10) (Acetaldehyde dehydrogenase [acetylating]) (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = -2 Query: 68 FADIDIVFDATSAGA 82 FA +ATSAGA Sbjct: 4779 FASSSTTIEATSAGA 4735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPR_ECOLI P77569 Mhp operon transcriptional activator (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -1 Query: 60 YVRRSPSDDSF 70 Y+RRSPS F Sbjct: 6691 YLRRSPSRFRF 6659 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%) Frame = +2 Query: 256 IEEGVESQAILVAGRRSGMHLR 277 +EEG +QAI R+G ++R Sbjct: 4796 VEEGNSAQAI----GRNGQNVR 4849 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 11/24 (45%) Frame = -1 Query: 88 WISALAAPLLGDLLREVVWPTDVS 111 W+ L LLR + P D++ Sbjct: 5398 WLHLSCCSFLLQLLRIIAKPADIA 5327 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MHPT_ECOLI P77589 Putative 3-hydroxyphenylpropionic acid transporter (403 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +1 Query: 350 LGAMSGPLLAGKMLA 364 + AM+ PL+ +MLA Sbjct: 3484 ITAMASPLICVQMLA 3528 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MIAA_ECOLI P16384 tRNA Delta(2)-isopentenylpyrophosphate transferase (IPP transferase) (2.5.1.8) (Isopentenyl-diphosphate:tRNA isopentenyltransferase) (IPTase) (IPPT) (Dimethylallyl diphosphate:tRNA dimethylallyltransferase) (DMAPP:tRNA dimethylallyltransferase) (DMATase) (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +2 Query: 273 CATRQLAKRQIT 284 C+T Q KRQ++ Sbjct: 563 CSTEQRYKRQVS 598 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +1 Query: 13 IFLMGPTASGKTAL 26 + +MG GKT+L Sbjct: 6538 VTIMGHVDHGKTSL 6579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MIAB_ECOLI P0AEI1 (Dimethylallyl)adenosine tRNA methylthiotransferase miaB (2.-.-.-) (tRNA-i(6)A37 methylthiotransferase) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 17/33 (51%) Frame = -1 Query: 86 SQEGEHIRQRAHYVDIIFGPQTLHRLPEMINSV 118 S G HI+ +YV + +L ++ +N++ Sbjct: 2503 SLWGHHIKNALYYVPLFLA--SLKKIANNLNAI 2411 Score = 18.9 bits (37), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 142 PRAEGPTAFVS 152 P A GP F+S Sbjct: 4433 PEARGPQLFIS 4465 Score = 18.1 bits (35), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = -2 Query: 222 LRLVAAIDGIDRI 234 R + +DG+DR+ Sbjct: 6828 FRCFSMLDGLDRL 6790 Score = 17.7 bits (34), Expect = 5.3, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%), Gaps = 2/16 (12%) Frame = +2 Query: 130 FPEIEKFD--RLPEPR 143 PEI+ FD RL E R Sbjct: 5045 LPEIDSFDKKRLQELR 5092 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MINC_ECOLI P18196 Septum site-determining protein minC (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = +3 Query: 133 RSGQRIYAPQCD 144 +S RIY CD Sbjct: 3459 QSTLRIYIDNCD 3494 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MIND_ECOLI P0AEZ3 Septum site-determining protein minD (Cell division inhibitor minD) (270 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +2 Query: 149 SVRDSDRILGIL 160 ++R DRI GIL Sbjct: 4385 NIRPGDRIRGIL 4420 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = +1 Query: 234 DAGKAYADTVERLLGEERPFRFI 256 DAG + V R G +RF+ Sbjct: 4630 DAGSTCSSCV*RAGGRTY*YRFV 4698 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 84 YILPASQ 90 ++LPASQ Sbjct: 4646 HVLPASQ 4626 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MINE_ECOLI P0A734 Cell division topological specificity factor (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MIOC_ECOLI P03817 Protein mioC (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 98 FCGAIDKL 105 FC +DKL Sbjct: 3382 FCSNVDKL 3359 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MIPA_ECOLI P0A908 MltA-interacting protein (Precursor) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 78 LSITAYWSPLY 88 +SITA SPL Sbjct: 3478 ISITAMASPLI 3510 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/27 (25%), Positives = 15/27 (55%) Frame = -1 Query: 34 VVEHPYKDYDTDVYPVPVINYEGDNFW 60 +V + + + +YP + Y+G N+W Sbjct: 820 IV*Q*FTNISSGLYPGTL**YQGLNWW 740 Score = 15.8 bits (29), Expect = 10.0, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 12/31 (38%) Frame = +3 Query: 46 VYPVPVINYEGDNFWFRGLGGGYYLWNDATD 76 VY G+ + RG G W ATD Sbjct: 6708 VYINACTRCSGNRY--RGFGCCGR*WGHATD 6794 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLC_ECOLI P50456 Protein mlc (Making large colonies protein) (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = -2 Query: 159 TENGIVHRMPFYEDVK 174 T+NGIV + F + +K Sbjct: 2004 TDNGIVQLIIFQKQLK 1957 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLIC_ECOLI P28224 Membrane-bound lysozyme inhibitor of C-type lysozyme (Precursor) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 24 LVERMQTD 31 LVERMQ+ Sbjct: 6602 LVERMQSS 6579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLRA_ECOLI P33358 HTH-type transcriptional regulator mlrA (MerR-like regulator A) (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLTA_ECOLI P0A935 Membrane-bound lytic murein transglycosylase A (4.2.2.n1) (Murein hydrolase A) (Mlt38) (Precursor) (365 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +1 Query: 26 TDRGQQYKDGKFTQ 39 T+ Q+ +GKFT+ Sbjct: 238 TELCQRVAEGKFTE 279 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +2 Query: 147 RGRLPSRAEIYAGAL 161 RGR+ SRA I+ L Sbjct: 3434 RGRIYSRAPIHTAYL 3478 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLTB_ECOLI P41052 Membrane-bound lytic murein transglycosylase B (4.2.2.n1) (Murein hydrolase B) (35 kDa soluble lytic transglycosylase) (Slt35) (Precursor) (361 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 16/24 (66%) Frame = +2 Query: 71 HGFDRQQLQEILSQAKRLDSVLRL 94 FD+++LQE+ +A+ + + L L Sbjct: 5057 DSFDKKRLQELRDRAQNVLTTLAL 5128 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLTC_ECOLI P0C066 Membrane-bound lytic murein transglycosylase C (4.2.2.n1) (Murein hydrolase C) (Precursor) (359 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLTD_ECOLI P0AEZ7 Membrane-bound lytic murein transglycosylase D (4.2.2.n1) (Murein hydrolase D) (Regulatory protein dniR) (Precursor) (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +1 Query: 300 SGPQYVMVPKKHADQLRE 317 S +Y+MV H+D RE Sbjct: 823 SSKRYIMVTNYHSDAKRE 876 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MLTF_ECOLI P0AGC5 Membrane-bound lytic murein transglycosylase F (4.2.2.n1) (Murein lyase F) (Precursor) (518 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -3 Query: 139 YRPRTL 144 YRPRTL Sbjct: 5234 YRPRTL 5217 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MMCD_ECOLI P52045 Methylmalonyl-CoA decarboxylase (MMCD) (4.1.1.41) (Transcarboxylase) (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 12/24 (50%) Frame = +1 Query: 92 IQKFPKPIISMVEGSVWGGAFEMI 115 IQK + IIS+ GG E+ Sbjct: 178 IQKGGQGIISVTANVAAGGMTELC 249 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MMUM_ECOLI Q47690 Homocysteine S-methyltransferase (2.1.1.10) (S-methylmethionine:homocysteine methyltransferase) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MMUP_ECOLI Q47689 Probable S-methylmethionine permease (467 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.044 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.044, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 13/21 (61%) Frame = -2 Query: 76 TGAFHVYAARYLGPATGYTVA 96 T FH+ R+ PA G+TV+ Sbjct: 2070 TQLFHLRQMRFTSPAKGFTVS 2008 Score = 22.7 bits (47), Expect = 0.17, Method: Compositional matrix adjust. Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 2/53 (3%) Frame = +2 Query: 393 QQGKALSELHYRAPWYPLVPVLGFVLCLVACVG--LAFDPAQRIALWCGLPFV 443 QQG +L R P PLV + G + A + L + Q LW + V Sbjct: 704 QQGAVGKQLDIRPPIQPLVLLKGSRIESTADISKLLLDNNRQNDTLWSQITTV 862 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 13/20 (65%) Frame = +1 Query: 248 LIIFFIGTVFVLAALIPMQQ 267 L++FF+ L ALI +QQ Sbjct: 2530 LLVFFLLISIGLIALIVLQQ 2589 Score = 16.9 bits (32), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 138 IFGLNVISTRFFAE 151 +FG NVIS + Sbjct: 6669 VFGFNVISPDMLCD 6628 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNGB_ECOLI P54746 Alpha-mannosidase mngB (3.2.1.-) (877 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 6 RVHITPHMHWDR 17 R++ PH WDR Sbjct: 2023 RLYSKPH*QWDR 1988 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNGR_ECOLI P13669 Mannosyl-D-glycerate transport/metabolism system repressor mngR (Fatty acyl-responsive regulator) (Protein P30) (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +3 Query: 192 LLNISQTKPILEK 204 L+ I T+P+LEK Sbjct: 3123 LVQIRLTQPLLEK 3161 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNMA_ECOLI P25745 tRNA-specific 2-thiouridylase mnmA (2.8.1.-) (368 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.8, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 14/33 (42%) Frame = -3 Query: 98 PDILCNKEIKFKAFLEFAAEDLGADYIATGHYV 130 P+ LC+ + FL+ AD H++ Sbjct: 3857 PESLCSS*VASSKFLKVGCPVCFADIA*CEHFI 3759 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNMC_ECOLI P77182 tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein mnmC (tRNA mnm(5)s(2)U biosynthesis bifunctional protein) (tRNA (mnm(5)s(2)U34)-methyltransferase) (2.1.1.-) (FAD-dependent cmnm(5)s(2)U34 oxidoreductase) (1.5.-.-) (668 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.4, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 17/36 (47%) Frame = -1 Query: 309 GALYPLLSKHDEALNRFFSNAFTFARRFYDQLPVKF 344 GAL+ D+ +NR + F + D+ +KF Sbjct: 4981 GALFINFKMFDKHINRCTGFSLAFFLKLVDRHHIKF 4874 Score = 18.1 bits (35), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 597 KDEAVSAP 604 KDE +SAP Sbjct: 2791 KDEKISAP 2814 Score = 17.7 bits (34), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = -1 Query: 38 TRYVFLGGNQLEVRFPEHP 56 + Y+FL + F HP Sbjct: 499 SHYIFLAIKIVNPHFSRHP 443 Score = 17.3 bits (33), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 8/16 (50%) Frame = +2 Query: 138 CHRLLLDEGRVTLDLW 153 +LLLD R LW Sbjct: 797 ISKLLLDNNRQNDTLW 844 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNME_ECOLI P25522 tRNA modification GTPase mnmE (3.6.-.-) (454 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNMG_ECOLI P0A6U3 tRNA uridine 5-carboxymethylaminomethyl modification enzyme mnmG (Glucose-inhibited division protein A) (629 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNTH_ECOLI P0A769 Manganese transport protein mntH (412 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +3 Query: 391 WVIVVLVVALN 401 WVI+ VVA N Sbjct: 1413 WVILATVVACN 1445 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MNTR_ECOLI P0A9F1 Transcriptional regulator mntR (Manganese transport regulator) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.0, Method: Compositional matrix adjust. Identities = 4/13 (30%), Positives = 8/13 (61%) Frame = +3 Query: 89 WRGVFLTAEGEKL 101 W+G+ +GE + Sbjct: 3699 WQGIIKAVDGEMI 3737 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 14/29 (48%) Frame = +1 Query: 59 DMAARLGVSQPTVAKMLKRLATMGLIEMI 87 D R+G + + L ++GLI +I Sbjct: 2491 DPIGRIGTTMYVTLLVFFLLISIGLIALI 2577 Score = 15.4 bits (28), Expect = 7.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -3 Query: 103 QESRERHQIVENFLLV 118 Q S H+I ++ LLV Sbjct: 4283 QFSLLVHEIAQSLLLV 4236 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOAA_ECOLI P30745 Molybdenum cofactor biosynthesis protein A (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 11/26 (42%), Positives = 16/26 (61%) Frame = +1 Query: 283 LRDLLEDDTQQQALEARISAALREKK 308 +R +E+D ++ A EAR AA E K Sbjct: 5923 VRRKIEEDAKRVAEEARKMAAENEGK 6000 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOAB_ECOLI P0AEZ9 Molybdenum cofactor biosynthesis protein B (170 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%), Gaps = 1/12 (8%) Frame = +3 Query: 141 KACRTAW-ENII 151 K C T+W EN++ Sbjct: 4650 KLCLTSWGENVL 4685 Score = 16.5 bits (31), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/22 (22%), Positives = 13/22 (59%) Frame = +1 Query: 20 NRRGEEDDTSGHYLRDSAQEAG 41 +R+G ++ H++ + + AG Sbjct: 1735 DRKGMINNKFNHFIMNRLEAAG 1800 Score = 15.4 bits (28), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -2 Query: 126 GVANKTLIF 134 VAN TLI Sbjct: 3066 NVANSTLII 3040 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOAC_ECOLI P0A738 Molybdenum cofactor biosynthesis protein C (161 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = +1 Query: 119 ASVAALTIYDMCKAV 133 A+VAA + ++C+ V Sbjct: 214 ANVAAGGMTELCQRV 258 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOAD_ECOLI P30748 Molybdopterin-converting factor subunit 1 (Molybdopterin synthase subunit 1) (MPT synthase subunit 1) (Molybdenum cofactor biosynthesis protein D) (Molybdopterin-converting factor small subunit) (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOAE_ECOLI P30749 Molybdopterin-converting factor subunit 2 (Molybdopterin synthase subunit 2) (MPT synthase subunit 2) (Molybdenum cofactor biosynthesis protein E) (Molybdopterin-converting factor large subunit) (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%) Frame = -2 Query: 101 SAHRSSAFEAGQFIMDYLKTRAP 123 S+H++ + + +D TRAP Sbjct: 4704 SSHKTISIRSPPSSLDTA*TRAP 4636 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOBA_ECOLI P32173 Molybdopterin-guanine dinucleotide biosynthesis protein A (Protein FA) (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -3 Query: 177 AFVNVNTPEELARWQE 192 A +++NT LA W + Sbjct: 3491 AVIDINTQCGLAPWNK 3444 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOBB_ECOLI P32125 Molybdopterin-guanine dinucleotide biosynthesis protein B (175 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.062 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.062, Method: Compositional matrix adjust. Identities = 10/51 (19%), Positives = 23/51 (45%) Frame = -1 Query: 11 AFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDMDVDKPGKDSYELR 61 ++ +W + K L + +IP P L++H+ ++ P ++ R Sbjct: 4753 SYLSWRHSVKNELSRIIIPQNDINTFSPQLVRHS---LNTCSPHPNTCPYR 4610 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +1 Query: 139 IAVASDVPLNLDVALLD 155 + + S VP++ D LLD Sbjct: 2989 VQIPSSVPIHRDSLLLD 3039 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = -3 Query: 151 VALLDINDVEGLA 163 +A++DIN GLA Sbjct: 3494 IAVIDINTQCGLA 3456 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MODA_ECOLI P37329 Molybdate-binding periplasmic protein (Precursor) (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 10/17 (58%), Positives = 10/17 (58%) Frame = -2 Query: 60 FASSSTLARQIEAGAPA 76 FASSST AGA A Sbjct: 4779 FASSSTTIEATSAGAIA 4729 Score = 15.8 bits (29), Expect = 9.8, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 1/41 (2%) Frame = -1 Query: 143 DPEHVPAG-IYAKEALQKLGAWDTLSPKLAPAEDVRGALAL 182 D H P+ +Y+K Q WD + + + G LAL Sbjct: 2047 DALH*PSQRLYSKPH*Q----WDRAADHFSKTAQIMGDLAL 1937 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MODB_ECOLI P0AF01 Molybdenum transport system permease protein modB (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 217 EWLARISR 224 +WL RISR Sbjct: 1050 KWLLRISR 1073 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MODC_ECOLI P09833 Molybdenum import ATP-binding protein modC (3.6.3.29) (352 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = +1 Query: 260 VNKLDEPLQAALRIRIQAS 278 +NK+D+P R+R + S Sbjct: 6847 INKIDKPNADPERLRTELS 6903 Score = 16.9 bits (32), Expect = 6.8, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 16/26 (61%) Frame = -1 Query: 244 PHYAMTALALGDQHLWVNKLDEPLQA 269 P YA+ +L L LW N+ ++ +++ Sbjct: 6646 PRYAV*SLLLPLPQLWSNECNQAMKS 6569 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 11/21 (52%) Frame = +1 Query: 17 INETLPANGITAIFGVSGAGK 37 + + A + +FG SG+G Sbjct: 2605 MGASFGAGASSTLFGSSGSGN 2667 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MODE_ECOLI P0A9G8 Transcriptional regulator modE (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -1 Query: 76 AVLTRYGQRLIQLYDLL 92 A YGQ+ L+DLL Sbjct: 6226 AFFCFYGQQPALLHDLL 6176 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +2 Query: 182 LKAPWVGITQDEAVA 196 +K+PWV AVA Sbjct: 2159 IKSPWVMSFPPMAVA 2203 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MODF_ECOLI P31060 Putative molybdenum transport ATP-binding protein modF (Photorepair protein phrA) (490 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOEA_ECOLI P12281 Molybdopterin biosynthesis protein moeA (411 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 226 IRDDPHAL 233 IRDDP+ + Sbjct: 1854 IRDDPYRM 1877 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOEB_ECOLI P12282 Molybdopterin biosynthesis protein moeB (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.34, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 18/34 (52%) Frame = -2 Query: 210 KMLAGYGKPASGKIVMYDAMTCQFREMKLMRNPG 243 +++ +G ASG+I ++ LMR+PG Sbjct: 4467 RLINNWGPRASGRISY---------KIPLMRSPG 4393 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 3/44 (6%) Frame = -3 Query: 63 FDTVSLSNL---QRQTLHSDATVGQPKVESARDALTRINPHIAI 103 FD L+ + Q+ TL + + P+VE + LT H+A+ Sbjct: 830 FDDYCLTIIY*YQQWTLSGNPLIV-PRVELVAECLTVCQRHLAV 702 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOG_ECOLI P0AF03 Molybdopterin biosynthesis mog protein (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.55, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = -3 Query: 6 IGLVSISDRASSGVYQDKGIPA 27 IGL SI++ SG+ + PA Sbjct: 344 IGLASINNSLCSGIKRSFKRPA 279 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOKB_ECOLI P76096 Regulatory protein mokB (55 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOKC_ECOLI P33236 Regulatory protein mokC (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOLR_ECOLI P33345 Putative molybdate metabolism regulator (1264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.19, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 15/19 (78%) Frame = +3 Query: 203 AVLTALEMKCTRYKVREDV 221 A++TALE+ C RY ++ +V Sbjct: 4392 ALVTALEVFCMRYVLKHEV 4448 Score = 19.6 bits (39), Expect = 3.6, Method: Composition-based stats. Identities = 8/17 (47%), Positives = 12/17 (70%) Frame = +1 Query: 266 YLEQYSRFEXRLRKHLS 282 YLE+ + + L+KHLS Sbjct: 3178 YLER*TDIDFDLKKHLS 3228 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOTA_ECOLI P09348 Chemotaxis protein motA (Motility protein A) (295 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MOTB_ECOLI P0AF06 Chemotaxis protein motB (Motility protein B) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MPAA_ECOLI P0ACV6 Protein mpaA (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.61, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 12/29 (41%) Frame = +2 Query: 167 RIQPAWVVSFHDPLACIEDPRHSELGEWL 195 R+Q + D L I H E+ WL Sbjct: 2810 RLQNRAAIFLSDRLVLIFVSEHKEILNWL 2896 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +1 Query: 101 PDGCQLGLRANANGVDLNR 119 PDGC+L + +D +R Sbjct: 2188 PDGCRLWDKKTLEKMDKDR 2244 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 150 DKPGSEPE 157 DKP ++PE Sbjct: 6859 DKPNADPE 6882 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 13/30 (43%) Frame = -2 Query: 179 PLACIEDPRHSELGEWLAQAFELPLVTSVG 208 P+AC E P + + A + TS G Sbjct: 4827 PIACAELPSSTAMFIVFASSSTTIEATSAG 4738 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MPGP_ECOLI P76329 Putative mannosyl-3-phosphoglycerate phosphatase (MPGP) (3.1.3.70) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.24 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.24, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +3 Query: 32 WLTRLREANVPVILC 46 WL R+ N+ ++LC Sbjct: 1053 WLLRISRYNITIVLC 1097 Score = 19.2 bits (38), Expect = 0.91, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 10/15 (66%) Frame = -3 Query: 9 LVFSDLDGTLLDSHS 23 L+FS L G L SHS Sbjct: 2807 LIFSSLAG*LRFSHS 2763 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 100 ISLVLNTLREKEH 112 +SLVL + K+H Sbjct: 2713 VSLVLGNMSSKQH 2751 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 12/24 (50%) Frame = +2 Query: 171 QFMQGARFWHVLDASAGKDQAANW 194 QF++ A FW +++ A W Sbjct: 3011 QFIEIACFWMMINVLFATFSDAGW 3082 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MPL_ECOLI P37773 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase (6.3.2.-) (Murein peptide ligase) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.38, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = -1 Query: 215 GRIIWPENDIN 225 RII P+NDIN Sbjct: 4714 SRIIIPQNDIN 4682 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 12/27 (44%) Frame = -3 Query: 24 GHEVTGSDANVYPPMSTLLEKQGIELI 50 GH+ YPP+ L + + LI Sbjct: 4403 GHQGVCFHEAAYPPVQLFLRRYYLGLI 4323 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +1 Query: 329 DFAHHPTAILATL 341 +F TAILATL Sbjct: 2665 NFMTRMTAILATL 2703 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 19/39 (48%) Frame = +2 Query: 251 KLTTDASEWEVLLDGEKVGEVKWSLVGEHNMHNGLMAIA 289 ++ + A ++LLD + + WS + M N + IA Sbjct: 776 RIESTADISKLLLDNNRQNDTLWSQITTV-MQNESLPIA 889 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MPPA_ECOLI P77348 Periplasmic murein peptide-binding protein (Precursor) (537 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.0, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = -2 Query: 360 LNAQAKTLLSAAGYGPQKPL 379 + AQ +++ AG+ KPL Sbjct: 156 ITAQQNKIITNAGFYHAKPL 97 Score = 17.7 bits (34), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = -3 Query: 391 HQKIAIAVASMWKKNLGVD 409 HQ + + MW + G D Sbjct: 5150 HQNFLLFLEPMWSVHSGHD 5094 Score = 17.3 bits (33), Expect = 7.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 287 PPQLGTY 293 PP+LGT+ Sbjct: 5612 PPELGTF 5592 Score = 16.9 bits (32), Expect = 9.2, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 3/31 (9%) Frame = -2 Query: 170 LDKPLPWFVNLTANFAF---FPVQKANVESG 197 P F LTA+F+F F + + +G Sbjct: 5964 FSNPFRVFFYLTAHFSFYRTFQFSRFCLTAG 5872 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MPRA_ECOLI P0ACR9 Transcriptional repressor mprA (Protein emrR) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MQO_ECOLI P33940 Malate:quinone oxidoreductase (1.1.99.16) (Malate dehydrogenase [acceptor]) (MQO) (548 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MQSR_ECOLI Q46865 Motility quorum-sensing regulator mqsR (98 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.0, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -1 Query: 39 FDGMCN 44 F+G CN Sbjct: 4300 FNGSCN 4283 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MRAW_ECOLI P60390 S-adenosyl-L-methionine-dependent methyltransferase mraW (2.1.1.-) (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.70, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 15/23 (65%) Frame = +1 Query: 219 IEQALKSSLNVLAPGGRLSIISF 241 +++ ++S+LNV + GG+ + Sbjct: 5566 LQRKIRSTLNVPSSGGKSKSVQI 5634 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MRAY_ECOLI P0A6W3 Phospho-N-acetylmuramoyl-pentapeptide-transferase (2.7.8.13) (UDP-MurNAc-pentapeptide phosphotransferase) (360 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MRAZ_ECOLI P22186 Protein mraZ (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.66, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 14/31 (45%) Frame = -3 Query: 25 QLLENAAGQMVCTIDIYHPCLLLYPLPEWEI 55 LL + Q VC YH LL+ P W + Sbjct: 5189 NLLNLTSRQRVC----YHQNFLLFLEPMWSV 5109 Score = 16.9 bits (32), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 10/21 (47%) Frame = +3 Query: 121 DETTWHQQVKEDIDAEQLATG 141 DET W+ + + ATG Sbjct: 6360 DETRWYGNNQPGY*SGNSATG 6422 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MREB_ECOLI P0A9X4 Rod shape-determining protein mreB (347 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.5, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 14/28 (50%) Frame = +2 Query: 210 IGEATAERIKHEIGSAYPGDEVREIEVR 237 I ATA + KHE +EIEVR Sbjct: 3923 IALATATKKKHE----------QEIEVR 3976 Score = 16.5 bits (31), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +3 Query: 315 VVVAEDPLTC 324 V+ E+P+TC Sbjct: 3543 VLDVEEPITC 3572 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MREC_ECOLI P16926 Rod shape-determining protein mreC (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 16/27 (59%), Gaps = 1/27 (3%) Frame = +2 Query: 275 NGAN-PMTPEEVHRVANERLMQMMPQV 300 N +N P+T H ++ M+MMP++ Sbjct: 6020 NKSN*PITMSLPHNTLGQQKMKMMPRL 6100 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MRED_ECOLI P0ABH4 Rod shape-determining protein mreD (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MRP_ECOLI P0AF08 Protein mrp (369 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.91, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 13/25 (52%) Frame = +2 Query: 65 ELKEQCSAELLRITGAKAIDWKLSH 89 ELKE+C AE AID + H Sbjct: 4898 ELKEKCQAET-----RTAIDMFIEH 4957 Score = 16.5 bits (31), Expect = 9.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 54 VMPFVW 59 V+PFVW Sbjct: 1822 VVPFVW 1805 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MRR_ECOLI P24202 Mrr restriction system protein (EcoKMrr) (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.1, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 3/28 (10%) Frame = +1 Query: 248 VFITTSG---FTSQARDFAQSVEGMVLV 272 F+ T G FTS AQ+ + +VLV Sbjct: 6679 TFLDTPGHAAFTSMRARGAQATDIVVLV 6762 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MSBA_ECOLI P60752 Lipid A export ATP-binding/permease protein msbA (3.6.3.-) (582 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.0, Method: Compositional matrix adjust. Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 2/41 (4%) Frame = -1 Query: 259 ASLALAFVLYA--ASFPSVMDSLTAGTITVVFSSMIALMRP 297 A AL +L A +SFPS T+T++ S ALM P Sbjct: 3802 ARFALRILLSANTSSFPS--------TVTMIISPSTALMIP 3704 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MSBB_ECOLI P24205 Lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase (2.3.1.-) (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.72, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 14/25 (56%) Frame = -2 Query: 233 IGRLMKVCRARVVPLFPIYDGKTHR 257 + ++ CR+R+V + PI+ R Sbjct: 1329 VTAMLPCCRSRLVTVIPIFANAGGR 1255 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -1 Query: 203 WGYYLPDQDHG 213 W +Y P D+G Sbjct: 6142 W*FYFPGCDYG 6110 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MSCL_ECOLI P0A742 Large-conductance mechanosensitive channel (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MSCS_ECOLI P0C0S1 Small-conductance mechanosensitive channel (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 10/44 (22%), Positives = 20/44 (45%), Gaps = 4/44 (9%) Frame = +2 Query: 144 TVLSVQIFSTTMRTADGKIIVIP----NGKIIAGNIINFSREPV 183 T + Q+ +R A+ +++ GKI+ + SRE + Sbjct: 4190 TQTAKQVIVQKVREAERAVVIEQFREQEGKIVTATVKKVSRESI 4321 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MSRA_ECOLI P0A744 Peptide methionine sulfoxide reductase msrA (Protein-methionine-S-oxide reductase) (1.8.4.11) (Peptide-methionine (S)-S-oxide reductase) (Peptide Met(O) reductase) (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.87 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.87, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +2 Query: 83 YREVCSGDTGHAEAVRIVYDPS 104 YR+ C G A V++ PS Sbjct: 3224 YRKSCRGILSAANRVQLYQTPS 3289 Score = 16.2 bits (30), Expect = 6.1, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 11/21 (52%) Frame = +2 Query: 144 PEQDAAARASLERFQAAMLAA 164 P D ASL+R A LAA Sbjct: 5159 PADDLLNLASLDRDMAFKLAA 5221 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MSRB_ECOLI P0A746 Peptide methionine sulfoxide reductase msrB (1.8.4.12) (Peptide-methionine (R)-S-oxide reductase) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.20, Method: Composition-based stats. Identities = 9/24 (37%), Positives = 15/24 (62%) Frame = -3 Query: 36 LHNKRDGVYHCLICDAPLFHSQTK 59 LH++ GVY+ ++ + L S TK Sbjct: 608 LHHRSLGVYNVVLSNKRLTTSATK 537 Score = 16.5 bits (31), Expect = 2.4, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -3 Query: 112 PTGERYCV 119 P G+R+C+ Sbjct: 1181 PLGDRFCL 1158 Score = 16.2 bits (30), Expect = 3.6, Method: Composition-based stats. Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 5/38 (13%) Frame = +1 Query: 9 ELKKNLSEMQFYVTQNHG-----TEPPFTGRLLHNKRD 41 +LKK+LSE+ + + + P F G LL K D Sbjct: 3208 DLKKHLSEVMPRDSFSGE*GPVVSNPEFRGFLLFEKND 3321 Score = 15.8 bits (29), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 45 HCLICDAPLFHSQ 57 +CL+ LFH Q Sbjct: 3783 YCLVRTLHLFHLQ 3745 Score = 15.8 bits (29), Expect = 4.8, Method: Composition-based stats. Identities = 6/23 (26%), Positives = 11/23 (47%) Frame = -1 Query: 79 RYIKDLSHGMQRIEIRCGNCDAH 101 RY+ L+H + + C D + Sbjct: 2302 RYV*QLAHRLLSHRLNCHESDLY 2234 Score = 15.0 bits (27), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 7/14 (50%) Frame = -2 Query: 93 IRCGNCDAHLGHVF 106 + CG C H+F Sbjct: 3795 LLCGYCLVRTLHLF 3754 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MSYB_ECOLI P25738 Acidic protein msyB (124 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +3 Query: 72 AQSVFDGDYD 81 A S+F D+D Sbjct: 2529 AASIFFTDFD 2558 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MTFA_ECOLI P76346 Protein mtfA (Mlc titration factor A) (265 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -1 Query: 52 LVPLQGFE 59 LVP GFE Sbjct: 3013 LVPRTGFE 2990 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MTGA_ECOLI P46022 Monofunctional biosynthetic peptidoglycan transglycosylase (Monofunctional TGase) (2.4.2.-) (242 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MTLD_ECOLI P09424 Mannitol-1-phosphate 5-dehydrogenase (1.1.1.17) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 15/31 (48%) Frame = +3 Query: 40 LNARHSYQVHVVGETEQVDTVSGVNAVSSIG 70 + A SYQV V + E+ T VSS G Sbjct: 3510 MCADVSYQVSAVLDVEEPITCPYNLEVSSPG 3602 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MTLR_ECOLI P0AF10 Mannitol operon repressor (Mannitol repressor protein) (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.86, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 16/23 (69%) Frame = -3 Query: 90 SVRLKLIYGLGVINRQEYEDAEL 112 +VRL++ + +G+I+ + +A L Sbjct: 1898 AVRLRMTHSIGIIS-NLFTNASL 1833 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MTNN_ECOLI P0AF12 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase (MTA/SAH nucleosidase) (MTAN) (3.2.2.9) (5'-methylthioadenosine nucleosidase) (MTA nucleosidase) (S-adenosylhomocysteine nucleosidase) (SAH nucleosidase) (AdoHcy nucleosidase) (SRH nucleosidase) (P46) (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.33, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = -3 Query: 96 RYHDADVTAFGYEYGQLPGC 115 R D + GYE +LP C Sbjct: 3143 REPDLNQRPSGYEPDELPSC 3084 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MTOX_ECOLI P40874 N-methyl-L-tryptophan oxidase (MTOX) (1.5.3.-) (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +2 Query: 270 HSADERVPFA 279 + ADE VPFA Sbjct: 938 NRADEDVPFA 967 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -2 Query: 168 FNCPVTAIRHD 178 F+ P+T +RH Sbjct: 264 FSYPLTKLRHS 232 Score = 16.5 bits (31), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +3 Query: 300 GCCLYGAACT 309 CC+Y ACT Sbjct: 6699 ACCVYINACT 6728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MTR_ECOLI P0AAD2 Tryptophan-specific transport protein (Tryptophan permease) (414 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 2/28 (7%) Frame = -2 Query: 201 CLASFGY--HGNVPSLMKYYGKDPKTIV 226 C +GY H VPS YY P + Sbjct: 5412 CQQLYGYICHA-VPSCYSYYALSPNQQI 5332 Score = 16.5 bits (31), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = -2 Query: 243 WLLATMGNIPRPEF 256 W L IPR +F Sbjct: 3270 WTLFAAERIPRHDF 3229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUG_ECOLI P0A9H1 G/U mismatch-specific DNA glycosylase (3.2.2.-) (Mismatch-specific uracil DNA-glycosylase) (MUG) (Double-strand-specific uracil glycosylase) (168 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.9, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 13/26 (50%) Frame = +2 Query: 94 EKIEDYQPQALAILGKQAYEQGFSQR 119 EKI + ALA K+ +EQ R Sbjct: 3899 EKIFEALEIALATATKKKHEQEIEVR 3976 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUKB_ECOLI P22523 Chromosome partition protein mukB (Structural maintenance of chromosome-related protein) (1486 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 4.1, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 15/29 (51%) Frame = +2 Query: 871 EGVTALNRILPRLNLLADDSLADRVDEIR 899 EG+ +LPR N+ D + + EIR Sbjct: 4346 EGIIGQEDMLPRENIRPGDRIRGILYEIR 4432 Score = 18.9 bits (37), Expect = 7.6, Method: Compositional matrix adjust. Identities = 10/16 (62%), Positives = 11/16 (68%), Gaps = 3/16 (18%) Frame = +2 Query: 908 AARF---VQQFGNQLA 920 A R+ VQQ GNQLA Sbjct: 965 AGRYQISVQQQGNQLA 1012 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUKE_ECOLI P22524 Chromosome partition protein mukE (Protein kicA) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUKF_ECOLI P60293 Chromosome partition protein mukF (Protein kicB) (440 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 18/32 (56%) Frame = +1 Query: 41 ERLDGEMSEGELVDAFRHVSDAFEQTSETIGV 72 E++D + G L V +A+EQ ++ IGV Sbjct: 2224 EKMDKDRFRGNL----GGVIEAYEQVAKRIGV 2307 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 2/49 (4%) Frame = +2 Query: 220 DTLEAAGDKLQANLLRIQD-ATMTHDDLHFV-DRLVFDLQSKLDRIISW 266 +T++A K+ N L+++ A + + F+ DRLV S+ I++W Sbjct: 2747 NTVKAVSGKI*VNQLKMRK*ARLQNRAAIFLSDRLVLIFVSEHKEILNW 2893 Score = 18.5 bits (36), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -3 Query: 88 NRFTSEQA 95 NRFTSE A Sbjct: 1919 NRFTSEPA 1896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURA_ECOLI P0A749 UDP-N-acetylglucosamine 1-carboxyvinyltransferase (2.5.1.7) (Enoylpyruvate transferase) (UDP-N-acetylglucosamine enolpyruvyl transferase) (EPT) (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURB_ECOLI P08373 UDP-N-acetylenolpyruvoylglucosamine reductase (1.1.1.158) (UDP-N-acetylmuramate dehydrogenase) (342 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 12/27 (44%) Frame = -1 Query: 187 VLTYGDLTRLDPTTVTPQQVFNAVCHM 213 +L+YG L L +V P CH Sbjct: 5941 LLSYGALLVLQNVSVQPLLPHGGSCHF 5861 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURC_ECOLI P17952 UDP-N-acetylmuramate--L-alanine ligase (6.3.2.8) (UDP-N-acetylmuramoyl-L-alanine synthetase) (491 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = -2 Query: 223 FYGRAVMCVDD 233 FY R CV D Sbjct: 5835 FYNRLTFCVSD 5803 Score = 16.9 bits (32), Expect = 8.6, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 436 DPILVPDPARVAEML 450 +P++VP VAE L Sbjct: 773 NPLIVPRVELVAECL 729 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURD_ECOLI P14900 UDP-N-acetylmuramoylalanine--D-glutamate ligase (6.3.2.9) (UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase) (D-glutamic acid-adding enzyme) (438 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.77, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +2 Query: 306 VVLEHNGVRWINDSK 320 V H G RW ND + Sbjct: 3698 VARYHQGCRWRNDHR 3742 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURE_ECOLI P22188 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase (6.3.2.13) (UDP-MurNAc-L-Ala-D-Glu:meso-diaminopimelate ligase) (Meso-diaminopimelate-adding enzyme) (Meso-A2pm-adding enzyme) (UDP-N-acetylmuramyl-tripeptide synthetase) (UDP-MurNAc-tripeptide synthetase) (495 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURF_ECOLI P11880 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase (6.3.2.10) (UDP-MurNAc-pentapeptide synthetase) (D-alanyl-D-alanine-adding enzyme) (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURG_ECOLI P17443 UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase (2.4.1.227) (Undecaprenyl-PP-MurNAc-pentapeptide-UDPGlcNAc GlcNAc transferase) (355 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURI_ECOLI P22634 Glutamate racemase (5.1.1.3) (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%) Frame = +3 Query: 78 AVQERYPLALAVVACNT 94 A+ ++ + VVACN+ Sbjct: 1398 AISCKWVILATVVACNS 1448 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -3 Query: 110 PVVGVVPAIKPAARL 124 P+ V+P PAA L Sbjct: 6644 PICCVIPPASPAATL 6600 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MURQ_ECOLI P76535 N-acetylmuramic acid 6-phosphate etherase (4.2.-.-) (MurNAc-6-P etherase) (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -2 Query: 259 ACERNC 264 +C RNC Sbjct: 4272 SCSRNC 4255 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUTH_ECOLI P06722 DNA mismatch repair protein mutH (Methyl-directed mismatch repair protein) (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = +1 Query: 41 PENLKRDKGWIGVLLEIWLGAS 62 PE L+ + G+L E W G S Sbjct: 6877 PERLRTELSQHGILPEEWGGDS 6942 Score = 16.9 bits (32), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = -2 Query: 107 TWETSHVRHKLK 118 TW S RHK K Sbjct: 3372 TWTNSPPRHKKK 3337 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUTL_ECOLI P23367 DNA mismatch repair protein mutL (615 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUTS_ECOLI P23909 DNA mismatch repair protein mutS (853 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 7.4, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 12/17 (70%) Frame = +2 Query: 252 LPHIRSITMEREQDSII 268 +PH+ + ++REQ +I Sbjct: 6938 IPHLFTYQLKREQGLMI 6988 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUTT_ECOLI P08337 Mutator mutT protein (7,8-dihydro-8-oxoguanine-triphosphatase) (8-oxo-dGTPase) (3.6.1.-) (dGTP pyrophosphohydrolase) (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.6, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +2 Query: 83 WFWLVE 88 WFWL+ Sbjct: 6752 WFWLLR 6769 Score = 15.8 bits (29), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 103 EWMSLVG 109 W+SLVG Sbjct: 2190 RWLSLVG 2210 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MUTY_ECOLI P17802 A/G-specific adenine glycosylase (3.2.2.-) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.14, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 13/24 (54%) Frame = -3 Query: 307 PVSSFTGCMDEGNALWYNLAQPPS 330 P+SS T C + W +A PPS Sbjct: 6437 PISSATSCAVS*SITWLIVAIPPS 6366 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +2 Query: 146 ARCYAVSGWPGKKEVENKLWS 166 AR AVS G + ++ LW Sbjct: 4640 ARVQAVSNELGGERIDIVLWD 4702 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 322 WYNLAQPP 329 W NL+QP Sbjct: 2767 WENLSQPA 2790 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = +2 Query: 127 SLSLGKHFPILDGNVK 142 +LSL K P+L+ +K Sbjct: 6278 TLSLVKRSPLLN*RIK 6325 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MVIM_ECOLI P75931 Virulence factor mviM homolog (307 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = +3 Query: 254 IPGWQSTL 261 IPG QSTL Sbjct: 3447 IPGRQSTL 3470 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 11/30 (36%) Frame = -1 Query: 130 GELKTQLATAASLRMDKHRSNSVGPHDLYF 159 +L T+ D HR + P YF Sbjct: 2245 SDLYPSFLTSFYPTSDSHRGKTHHPR*FYF 2156 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= MVIN_ECOLI P0AF16 Virulence factor mviN homolog (511 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 19/35 (54%) Frame = -1 Query: 216 LPRINFHDAGAMRVVKQMGPAILGVSVSQISLIIN 250 LPR+NF GA ++ + A S +++II+ Sbjct: 3832 LPRLNF*KWGARFALRILLSANTSSFPSTVTMIIS 3728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAC_ECOLI Q47005 Nitrogen assimilation regulatory protein nac (Nitrogen assimilation control protein) (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NADA_ECOLI P11458 Quinolinate synthetase A (2.5.1.72) (347 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.31, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 13/18 (72%) Frame = +1 Query: 46 AHYYTDPEIQQLAEETGG 63 +HY++ E+Q+LAE G Sbjct: 1582 SHYWSHIEMQKLAELYRG 1635 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NADB_ECOLI P10902 L-aspartate oxidase (LASPO) (1.4.3.16) (Quinolinate synthetase B) (540 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NADC_ECOLI P30011 Nicotinate-nucleotide pyrophosphorylase [carboxylating] (2.4.2.19) (Quinolinate phosphoribosyltransferase [decarboxylating]) (QAPRTase) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.16, Method: Compositional matrix adjust. Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 14/75 (18%) Frame = +1 Query: 35 LGGTVDANNDI---TAKLLPENSRSHATVITRENGVFCGKRWVEEVFIQ-----LAGDD- 85 LGG N I TA+L+ E H ++ REN +EE + +AG+ Sbjct: 6367 LGGMATINQVIDQETAQLVAEEM-GHKVILRREN-------ELEEALMSDRDMGVAGESA 6522 Query: 86 -----VTIIWHVDDG 95 VTI+ HVD G Sbjct: 6523 LRAPVVTIMGHVDHG 6567 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +2 Query: 57 HATVITRENGVFCGKRW 73 HA V+ ++C KRW Sbjct: 5 HAPVV-----IYCPKRW 40 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NADD_ECOLI P0A752 Nicotinate-nucleotide adenylyltransferase (2.7.7.18) (Deamido-NAD(+) pyrophosphorylase) (Deamido-NAD(+) diphosphorylase) (Nicotinate mononucleotide adenylyltransferase) (NaMN adenylyltransferase) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 10.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 10.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -1 Query: 143 QPQYQQWLEDHLTH 156 QP+ + L +HL H Sbjct: 6763 QPKPRYLLPEHLVH 6722 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NADE_ECOLI P18843 NH(3)-dependent NAD(+) synthetase (6.3.1.5) (Nitrogen regulatory protein) (Nicotinamide adenine dinucleotide synthetase) (NADS) (275 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.13, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 14/30 (46%) Frame = +3 Query: 198 ALACPEHLYKKAPTADLEDDRPSLPDEVAL 227 L C EH++K T+ E+ S + L Sbjct: 4623 VLGCGEHVFKLCLTSWGENVLISFCGMIIL 4712 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NADR_ECOLI P27278 Transcriptional regulator nadR (410 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAGA_ECOLI P0AF18 N-acetylglucosamine-6-phosphate deacetylase (3.5.1.25) (GlcNAc 6-P deacetylase) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.97 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.97, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 11/23 (47%) Frame = +1 Query: 155 LVDFLCENADVITKVTLAPEMVP 177 LVDF E K+TL E P Sbjct: 2122 LVDFKLEFGLFENKITLGDEFSP 2190 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 15/31 (48%) Frame = +2 Query: 235 ILDEADIYCGIIADGLHVDYANIRNAKRLKG 265 ILD + GII + NIR R++G Sbjct: 4322 ILDLGNNAEGIIGQEDMLPRENIRPGDRIRG 4414 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -2 Query: 314 IEGVRNLVEHC 324 IEG+ L HC Sbjct: 1737 IEGLNTLTIHC 1705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAGB_ECOLI P0A759 Glucosamine-6-phosphate deaminase (3.5.99.6) (Glucosamine-6-phosphate isomerase) (GlcN6P deaminase) (GNPDA) (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 9/14 (64%) Frame = +2 Query: 224 WTISCLQLHPKAIM 237 W ++CL++ +M Sbjct: 2138 WNLACLKIKSPWVM 2179 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAGC_ECOLI P0AF20 N-acetylglucosamine repressor (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAGD_ECOLI P0AF24 Protein nagD (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.33, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 17/33 (51%) Frame = +1 Query: 51 DLANRFATAGVDVPDSVFYTSAMATADFLRRQE 83 +LAN+ A G V ++ MAT + + QE Sbjct: 6310 ELANKMAVKGSQVIKTMMKLGGMATINQVIDQE 6408 Score = 17.3 bits (33), Expect(2) = 1.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +3 Query: 133 FVANGARFIATNPDTH 148 F+A I++NP H Sbjct: 21 FIARNGGEISSNPQYH 68 Score = 16.9 bits (32), Expect(2) = 1.9, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +3 Query: 165 KISGRKPFYVGKPSPWIIRAA 185 +IS ++ K S W RAA Sbjct: 42 EISSNPQYHRVKRSHWKFRAA 104 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 9/48 (18%) Frame = -1 Query: 99 LYKAGFTITDVNPDF-----VIVGETRSYNW----DMMHKAAYFVANG 137 L + F+I D+NPDF +G R N+ +++ + + NG Sbjct: 4009 LEISCFSI-DINPDFNFLFMFFLGRCR*CNF*CFKNLLTWKGFLIRNG 3869 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAGK_ECOLI P75959 N-acetyl-D-glucosamine kinase (2.7.1.59) (GlcNAc kinase) (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +3 Query: 235 VCLGNILTIVDP 246 +CL NIL ++ Sbjct: 4941 ICLSNILKLMKS 4976 Score = 16.2 bits (30), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 178 GCGQHGCIEN 187 GCG CIE+ Sbjct: 1495 GCGATRCIES 1524 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAGZ_ECOLI P75949 Beta-hexosaminidase (3.2.1.52) (N-acetyl-beta-glucosaminidase) (Beta-N-acetylhexosaminidase) (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NANA_ECOLI P0A6L4 N-acetylneuraminate lyase (4.1.3.3) (N-acetylneuraminic acid aldolase) (N-acetylneuraminate pyruvate-lyase) (Sialic acid lyase) (Sialate lyase) (Sialic acid aldolase) (NALase) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NANC_ECOLI P69856 Probable N-acetylneuraminic acid outer membrane channel protein nanC (NanR-regulated channel) (Porin nanC) (Precursor) (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 16/33 (48%) Frame = +2 Query: 177 QNDYRYANHKKWATENAFVLQYHMTPDITPYIE 209 +ND+RY +W + QY + TP ++ Sbjct: 3728 RNDHRYC---RWKR*SVRTKQYPQSKPGTPLLK 3817 Score = 16.2 bits (30), Expect = 7.3, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -3 Query: 14 CFSSPLI 20 CF+ PL+ Sbjct: 4112 CFAEPLL 4092 Score = 16.2 bits (30), Expect = 7.6, Method: Compositional matrix adjust. Identities = 15/61 (24%), Positives = 21/61 (34%), Gaps = 11/61 (18%) Frame = +2 Query: 70 KENAALNDVQVEVNYAIKLDDQWTVRPGMLTHFSSNGTR-----------YGPYVKLSWD 118 ++++AL + V YAI W P L T+ Y P WD Sbjct: 1193 RDDSALPRLIVRAPYAIV----WQRLPPALAKIGMTVTKRDRQQGNIAVTYSPINSRDWD 1360 Query: 119 A 119 A Sbjct: 1361 A 1363 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NANE_ECOLI P0A761 Putative N-acetylmannosamine-6-phosphate 2-epimerase (5.1.3.9) (ManNAc-6-P epimerase) (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.9, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 12/31 (38%) Frame = -1 Query: 134 STPEDGLACQKLGAEIIGTTLSGYTTPETPE 164 STP + GAEII TP+ Sbjct: 3442 STPTNLCPKAFTGAEIISVNFCSNVDKLTPK 3350 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NANK_ECOLI P45425 N-acetylmannosamine kinase (2.7.1.60) (N-acetyl-D-mannosamine kinase) (ManNAc kinase) (291 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 167 GCGRTGCVE 175 GCG T C+E Sbjct: 1495 GCGATRCIE 1521 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NANM_ECOLI P39371 N-acetylneuraminate epimerase (5.1.3.n1) (N-acetylneuraminate mutarotase) (Neu5Ac mutarotase) (Sialic acid epimerase) (Precursor) (368 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = -3 Query: 117 WVKLMSHAPMGMAG 130 WVK H P+ G Sbjct: 1214 WVKRYRHVPLVPLG 1173 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NANR_ECOLI P0A8W0 Transcriptional regulator nanR (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NANT_ECOLI P41036 Putative sialic acid transporter (Sialic acid permease) (496 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.7, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 11/20 (55%), Gaps = 4/20 (20%) Frame = +1 Query: 17 AQWR----AFSAAWLGYLLD 32 AQW +FSA WLG D Sbjct: 4828 AQWSKCTLSFSAEWLGT*CD 4887 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAPA_ECOLI P33937 Periplasmic nitrate reductase (1.7.99.4) (Precursor) (828 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 4.5, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 4/33 (12%) Frame = +2 Query: 790 VYMPF----FDAAQLVNKLTLDATDPLSKETDF 818 V MP +AAQ ++K P+S E++ Sbjct: 4040 VVMPTREITLEAAQEISKEEAQQNTPISTESEI 4138 Score = 17.7 bits (34), Expect = 8.5, Method: Compositional matrix adjust. Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 5/45 (11%) Frame = +2 Query: 56 LVGTQQGRVVACQGDPDAP-----VNRGLNCIKGYFLPKIMYGKD 95 ++ + RV P +P + L+C+ + PK+ GK Sbjct: 6488 VIAIWEWRVNLLYAPPSSPSWVMLIMVRLHCLIAFVRPKLRQGKQ 6622 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAPB_ECOLI P0ABL3 Diheme cytochrome c napB (Precursor) (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.036 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.036, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 14/29 (48%) Frame = -1 Query: 73 GYQVTTNTNRCLQCHGVESYRTTGAPRIS 101 Y + N RCL + V++YR IS Sbjct: 4228 AYFLYNNLFRCLGSYAVKNYRFNLVFNIS 4142 Score = 16.9 bits (32), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +2 Query: 23 GAVWAANGVDFSQSP 37 G + AAN V Q+P Sbjct: 3242 GILSAANRVQLYQTP 3286 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAPC_ECOLI P0ABL5 Cytochrome c-type protein napC (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = +1 Query: 153 FEYMDTTAQ 161 FEY DTT Q Sbjct: 1060 FEYRDTTLQ 1086 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +2 Query: 9 GLIKRLWK 16 GL+KR+W+ Sbjct: 2030 GLVKRIWR 2053 Score = 16.9 bits (32), Expect = 3.5, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 1/22 (4%) Frame = -1 Query: 107 SKELYGKIFGVIDTPQK-FEAH 127 + L+GKIF D + FE H Sbjct: 5266 ANTLFGKIFQRTDPARC*FECH 5201 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAPD_ECOLI P0A9I5 Protein napD (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = +2 Query: 26 LNAFPGCEVA 35 LNA EVA Sbjct: 4724 LNAMAPAEVA 4753 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAPF_ECOLI P0AAL0 Ferredoxin-type protein napF (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.78, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 9/23 (39%) Frame = -1 Query: 130 GIYQPQLNSQLCNGCGACAASCP 152 + PQL N C +CP Sbjct: 4684 NTFSPQLVRHSLNTCSPHPNTCP 4616 Score = 18.5 bits (36), Expect = 0.87, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = +1 Query: 84 FSPRHTRAWD 93 FSP R WD Sbjct: 2182 FSPDGCRLWD 2211 Score = 18.1 bits (35), Expect = 1.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +2 Query: 84 FSPRHTRAWD 93 +SP ++R WD Sbjct: 1331 YSPINSRDWD 1360 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAPG_ECOLI P0AAL3 Ferredoxin-type protein napG (Precursor) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NAPH_ECOLI P33934 Ferredoxin-type protein napH (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -2 Query: 103 LFCSWVCPLNPITDL 117 L SW+ + P+T L Sbjct: 2799 LIFSWLTQIFPLTAL 2755 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARG_ECOLI P09152 Respiratory nitrate reductase 1 alpha chain (1.7.99.4) (Nitrate reductase A subunit alpha) (Quinol-nitrate oxidoreductase subunit alpha) (1247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.42, Method: Compositional matrix adjust. Identities = 12/27 (44%), Positives = 14/27 (51%) Frame = +1 Query: 160 RSSWQEVNELIAASNVYTIKNYGPDRV 186 R WQ V S + TIK + PDRV Sbjct: 709 RCRWQTVRHSATNSTLGTIKGF-PDRV 786 Score = 21.9 bits (45), Expect = 0.75, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 16/30 (53%) Frame = -2 Query: 367 QENNPEWKTVAFNTNGEMVAPNGSIGFRWG 396 +EN+ KTVA +++ + N SI R Sbjct: 5010 EENSASTKTVAHSSSISRCSINISIAVRVS 4921 Score = 20.4 bits (41), Expect = 2.2, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +2 Query: 584 LRPQTGWQP 592 L+P+TGW P Sbjct: 6656 LKPKTGW*P 6682 Score = 20.4 bits (41), Expect = 2.4, Method: Compositional matrix adjust. Identities = 14/43 (32%), Positives = 15/43 (34%), Gaps = 7/43 (16%) Frame = -1 Query: 59 SWKIYVKNGLVTWETQQTDYPRTRPDLPNH-------EPRGCP 94 SW+ VKN L Q D P L H P CP Sbjct: 4744 SWRHSVKNELSRIIIPQNDINTFSPQLVRHSLNTCSPHPNTCP 4616 Score = 18.5 bits (36), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/21 (23%), Positives = 12/21 (57%) Frame = +3 Query: 365 LGQENNPEWKTVAFNTNGEMV 385 + +N +W+ + +GEM+ Sbjct: 3675 IAMQNRRKWQGIIKAVDGEMI 3737 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARH_ECOLI P11349 Respiratory nitrate reductase 1 beta chain (1.7.99.4) (Nitrate reductase A subunit beta) (Quinol-nitrate oxidoreductase subunit beta) (512 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 22 CSVTCKNVW 30 C++TC VW Sbjct: 4218 CTITCFAVW 4192 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARI_ECOLI P11350 Respiratory nitrate reductase 1 gamma chain (1.7.99.4) (Nitrate reductase A subunit gamma) (Quinol-nitrate oxidoreductase subunit gamma) (Cytochrome B-NR) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.8, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = -2 Query: 18 AVFLIGSWL 26 A FLI SWL Sbjct: 2808 AYFLIFSWL 2782 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARJ_ECOLI P0AF26 Respiratory nitrate reductase 1 delta chain (1.7.99.4) (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.42, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 15/29 (51%) Frame = +2 Query: 158 FDLLLKLANTAIDSDKVAEKIADEARDDT 186 D + +N A ++DK+ ARDD+ Sbjct: 1118 LDKIRSNSNNAQNTDKIGRLEVQAARDDS 1204 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARK_ECOLI P10903 Nitrite extrusion protein 1 (Nitrite facilitator 1) (463 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.23, Method: Compositional matrix adjust. Identities = 12/29 (41%), Positives = 14/29 (48%), Gaps = 1/29 (3%) Frame = -2 Query: 15 ITDWRPEDPAFWQQRGQR-IASRNLWISV 42 + W P FWQ R S+ LWISV Sbjct: 6954 VNKWGISSPLFWQDTVLR*FCSKTLWISV 6868 Score = 20.0 bits (40), Expect = 0.94, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 14/25 (56%) Frame = -3 Query: 97 PIFGGRRWTAFSTGILIIPCVWLGF 121 P+ R TA TG+L + C LGF Sbjct: 6290 PMITSRLTTA--TGLLKLCCKVLGF 6222 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -1 Query: 33 IASRNLWISVPCLLLAFCV 51 I S + + +PC L FC+ Sbjct: 3736 IISPSTALMIPCHLRRFCI 3680 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARL_ECOLI P0AF28 Nitrate/nitrite response regulator protein narL (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARP_ECOLI P31802 Nitrate/nitrite response regulator protein narP (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.37, Method: Compositional matrix adjust. Identities = 12/46 (26%), Positives = 25/46 (54%) Frame = +1 Query: 39 GDGASAIDLANRLDIDVILLDLNMKGMSGLDTLNALRRDGVTAQII 84 G+ + +LAN++ + + M + G+ T+N + D TAQ++ Sbjct: 6289 GETVTVAELANKMAVKGSQVIKTMMKLGGMATINQV-IDQETAQLV 6423 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARQ_ECOLI P27896 Nitrate/nitrite sensor protein narQ (2.7.13.3) (566 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARU_ECOLI P37758 Nitrite extrusion protein 2 (Nitrite facilitator 2) (462 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARV_ECOLI P0AF32 Respiratory nitrate reductase 2 gamma chain (1.7.99.4) (226 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARW_ECOLI P19317 Respiratory nitrate reductase 2 delta chain (1.7.99.4) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 12/21 (57%) Frame = +2 Query: 9 LLMEYPDELLWECKEDALALI 29 L++ P ++W+ ALA I Sbjct: 1217 LIVRAPYAIVWQRLPPALAKI 1279 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARX_ECOLI P0AFA2 Nitrate/nitrite sensor protein narX (2.7.13.3) (598 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 14/21 (66%) Frame = +2 Query: 556 MRDRAQSLRGDCRVRRRESGG 576 +RDRAQ++ +++ ES G Sbjct: 5087 LRDRAQNVLTTLALKKEESFG 5149 Score = 18.1 bits (35), Expect = 4.9, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 8/15 (53%) Frame = -1 Query: 105 YWRNELIPALMRAQN 119 YW ELI RA N Sbjct: 64 YWGFELISPPFRAIN 20 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -1 Query: 546 IRSNHYGMII 555 IRSNH+ +++ Sbjct: 1066 IRSNHFFLLL 1037 Score = 17.3 bits (33), Expect = 9.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 8/19 (42%) Frame = +3 Query: 532 LTVQDNGCGVPENAIRSNH 550 L + N C E R NH Sbjct: 5343 LAIMRNNCSRKEQHDRCNH 5399 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARY_ECOLI P19318 Respiratory nitrate reductase 2 beta chain (1.7.99.4) (514 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 22 CSVTCKNVW 30 C++TC VW Sbjct: 4218 CTITCFAVW 4192 Score = 17.3 bits (33), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 10/23 (43%) Frame = +1 Query: 445 RYLAIANYEDRFVIPTSHREMAG 467 RY+ + NY HR +G Sbjct: 832 RYIMVTNYHSDAKREPPHRRSSG 900 Score = 16.9 bits (32), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 10/19 (52%) Frame = -3 Query: 444 YRYLAIANYEDRFVIPTSH 462 YR++ + DRF + H Sbjct: 1202 YRHVPLVPLGDRFCLCFEH 1146 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NARZ_ECOLI P19319 Respiratory nitrate reductase 2 alpha chain (1.7.99.4) (1246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.30, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 13/18 (72%) Frame = +2 Query: 372 PQWKTVAVNTAGELVVPN 389 P+ K +AV AGE+ +PN Sbjct: 6092 PRLKEIAVVAAGEVKLPN 6145 Score = 22.3 bits (46), Expect = 0.58, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 14/35 (40%) Frame = -1 Query: 59 SWKIYVKNGLVTWEIQQTDYPRTRPDLPNHEPRGC 93 SW+ VKN L I Q D P L H C Sbjct: 4744 SWRHSVKNELSRIIIPQNDINTFSPQLVRHSLNTC 4640 Score = 19.2 bits (38), Expect = 5.0, Method: Composition-based stats. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +3 Query: 272 RYKGTKTIAITPD 284 RYK TIA+ PD Sbjct: 1179 RYKRHVTIALYPD 1217 Score = 18.9 bits (37), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +2 Query: 579 GQEKLRPQTGWLP 591 G L+P+TGW P Sbjct: 6644 GLITLKPKTGW*P 6682 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NDK_ECOLI P0A763 Nucleoside diphosphate kinase (NDK) (NDP kinase) (2.7.4.6) (Nucleoside-2-P kinase) (143 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 9/21 (42%) Frame = +1 Query: 123 ESAAREIAYFFGEGEVCPRTR 143 S R +FF +C R R Sbjct: 4981 HSFGRSRIFFFRRISLCTRKR 5043 Score = 15.0 bits (27), Expect = 8.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 107 YADSLTENG 115 + SLT+NG Sbjct: 2019 FTVSLTDNG 1993 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NDPA_ECOLI P33920 Nucleoid-associated protein ndpA (335 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -2 Query: 320 PPNLRDQLQRRTSG 333 PPN + LQR T+G Sbjct: 3651 PPNSQYNLQR*TTG 3610 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NEMA_ECOLI P77258 N-ethylmaleimide reductase (1.-.-.-) (N-ethylmaleimide reducing enzyme) (365 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.36, Method: Compositional matrix adjust. Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 1/68 (1%) Frame = +1 Query: 15 ITAANRIFMAPLT-RLRSIEPGDIPTPLMAEYYRQRASAGLIISEATQISAQAKGYAGAP 73 IT A R M +T +L + E L+ ++ A AGL SE + ++ Q K A Sbjct: 5359 ITVAGRNSMTDVTIKLLAAEISTSVDRLIQQF----ADAGLKKSETSSVTQQEKEILLAH 5526 Query: 74 GIHSPEQI 81 H P Q+ Sbjct: 5527 LKHEPGQV 5550 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NEPI_ECOLI P0ADL1 Purine ribonucleoside efflux pump nepI (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.14, Method: Compositional matrix adjust. Identities = 22/64 (34%), Positives = 28/64 (43%), Gaps = 6/64 (9%) Frame = -1 Query: 51 GISEGVAGQSVTVTAFVAMFASLFITQTIQATDRRYVVILFAVLLT--LSC----LLVSF 104 G+ + QSV + F SL Q T+ RYV L LL+ L+C L SF Sbjct: 2404 GVDTNESLQSVQAQFHLKSFYSLIRCQKRALTEPRYV*QLAHRLLSHRLNCHESDLYPSF 2225 Query: 105 ANSF 108 SF Sbjct: 2224 LTSF 2213 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NFI_ECOLI P68739 Endonuclease V (3.1.21.7) (Deoxyinosine 3'endonuclease) (Deoxyribonuclease V) (DNase V) (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NFNB_ECOLI P38489 Oxygen-insensitive NAD(P)H nitroreductase (1.-.-.-) (FMN-dependent nitroreductase) (Dihydropteridine reductase) (1.5.1.34) (217 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.081 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.081, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 10/20 (50%) Frame = -2 Query: 84 FCAKTAMDDVWLKLVVDQED 103 FC+KT VW VD D Sbjct: 6897 FCSKTLWISVWFIYFVDNND 6838 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NFRA_ECOLI P31600 Bacteriophage N4 adsorption protein A (Precursor) (990 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.8, Method: Composition-based stats. Identities = 10/22 (45%), Positives = 13/22 (59%) Frame = +1 Query: 180 ASPEGKTLRTDLLQRAIYLKQW 201 A PE LRT+L Q I ++W Sbjct: 6871 ADPE--RLRTELSQHGILPEEW 6930 Score = 19.2 bits (38), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/19 (26%), Positives = 11/19 (57%) Frame = +2 Query: 747 SSIGLRSGAMSTANNNVGG 765 + +G+R + +N +GG Sbjct: 4619 ACVGMRGARVQAVSNELGG 4675 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NFRB_ECOLI P0AFA5 Bacteriophage N4 adsorption protein B (745 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.1, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 3/31 (9%) Frame = +3 Query: 133 ARPGPTSKADCLNNVLDAIT---QFERSANF 160 A+ P + CL+N+L + QF NF Sbjct: 4914 AKLKPVQRLICLSNILKLMKSAPQFWSKQNF 5006 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NFSA_ECOLI P17117 Oxygen-insensitive NADPH nitroreductase (1.-.-.-) (Modulator of drug activity A) (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NFUA_ECOLI P63020 Fe/S biogenesis protein nfuA (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NHAA_ECOLI P13738 Na(+)/H(+) antiporter nhaA (Sodium/proton antiporter nhaA) (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = -1 Query: 249 KRLEHVLHPWVAY 261 +RLE+V HP + Y Sbjct: 1735 RRLEYVDHPLLMY 1697 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NHAB_ECOLI P0AFA7 Na(+)/H(+) antiporter nhaB (Sodium/proton antiporter nhaB) (513 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +3 Query: 468 RLSYGRMVW 476 R YGR +W Sbjct: 2595 RCGYGRFIW 2621 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NHAR_ECOLI P0A9G2 Transcriptional activator protein nhaR (Na(+)/H(+) antiporter regulatory protein) (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +2 Query: 58 RGLEPSELGELVYR 71 RGL P +VYR Sbjct: 3584 RGLIPRS*APVVYR 3625 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NHOA_ECOLI P77567 N-hydroxyarylamine O-acetyltransferase (2.3.1.118) (Arylhydroxamate N,O-acetyltransferase) (Arylamine N-acetyltransferase) (NAT102) (281 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 11/21 (52%) Frame = -3 Query: 94 VVLSNPPALPPRTHRLLLVEL 114 VVLSN T RLL + L Sbjct: 578 VVLSNKRLTTSATKRLLSLSL 516 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 12/30 (40%) Frame = -2 Query: 195 PQSHFRHHLLMCRHLPDGGKLTLTNFHFTH 224 P F + + CR + +TN F H Sbjct: 198 PLPSFLYKIKTCRIITAQQNKIITNAGFYH 109 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 272 AFDTHPE 278 AFD HP+ Sbjct: 914 AFDLHPD 894 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIFJ_ECOLI P52647 Probable pyruvate-flavodoxin oxidoreductase (1.2.7.-) (1174 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.67, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 14/20 (70%) Frame = -1 Query: 76 LSTSFTSSQGLLLMIPTLYK 95 L+ S S + LLL+IP +YK Sbjct: 418 LAMSSVSVRFLLLLIPVVYK 359 Score = 20.0 bits (40), Expect = 2.9, Method: Compositional matrix adjust. Identities = 16/62 (25%), Positives = 27/62 (43%) Frame = -1 Query: 580 AELQGAIAKSYSSKGQDLVERNWQALALARESVEEVPLQPVNPHSANRPPVVSDAAPDFV 639 A LQ +++ S G LV +N V +QP+ PH + VV + F+ Sbjct: 5971 ALLQQPVSRLLLSYGALLVLQN-------------VSVQPLLPHGGSCHFVVESSIFSFL 5831 Query: 640 KT 641 ++ Sbjct: 5830 QS 5825 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIFU_ECOLI P0ACD4 NifU-like protein (128 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.83 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.83, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 3/33 (9%) Frame = +1 Query: 95 EELELPPVKIHCSILAEDAIKA---AIADYKSK 124 E++E P K +E A +A IAD KSK Sbjct: 5725 EQVEKKPAKAEEQAKSESAKEANAKKIADTKSK 5823 Score = 17.3 bits (33), Expect = 1.5, Method: Composition-based stats. Identities = 4/12 (33%), Positives = 7/12 (58%) Frame = +2 Query: 97 LELPPVKIHCSI 108 + PP+ + C I Sbjct: 2177 MSFPPMAVACGI 2212 Score = 16.5 bits (31), Expect = 2.3, Method: Composition-based stats. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -3 Query: 61 YGCGSAIASSSLVTEWV 77 + C S I+ S VTE V Sbjct: 5531 FKCASNISFSC*VTELV 5481 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIKA_ECOLI P33590 Nickel-binding periplasmic protein (Precursor) (524 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIKB_ECOLI P33591 Nickel transport system permease protein nikB (314 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = -1 Query: 128 DRLPDFAVRFIAFLG 142 D PDF F+ FLG Sbjct: 3985 DINPDFNFLFMFFLG 3941 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIKC_ECOLI P0AFA9 Nickel transport system permease protein nikC (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIKD_ECOLI P33593 Nickel import ATP-binding protein nikD (3.6.3.24) (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.11, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 1/26 (3%) Frame = -1 Query: 88 PRSAFNPLHTM-HTHARETCLALGKP 112 PR+ F P+ + H H + CL + P Sbjct: 3007 PRTGFEPVSPIEHYHLKVACLPISPP 2930 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 217 GKIVEQGDV 225 GK++ QGD Sbjct: 2187 GKLITQGDF 2161 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 113 ADDATLTAAIEAV 125 ADD + IEA+ Sbjct: 6769 ADDGVMPQTIEAI 6807 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIKE_ECOLI P33594 Nickel import ATP-binding protein nikE (3.6.3.24) (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -1 Query: 207 FITHDLRLVERFCQ 220 FIT L + FC+ Sbjct: 607 FITAHLAFITLFCR 566 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIKR_ECOLI P0A6Z6 Nickel-responsive regulator (133 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.58 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.58, Method: Composition-based stats. Identities = 11/32 (34%), Positives = 16/32 (50%) Frame = -1 Query: 57 SYVYEHEKRDLASRIVSTQHHHHDLSVATLHV 88 SY+YE R + +H+H L VA L + Sbjct: 3028 SYLYELVPRTGFEPVSPIEHYH--LKVACLPI 2939 Score = 16.5 bits (31), Expect = 2.7, Method: Composition-based stats. Identities = 11/32 (34%), Positives = 15/32 (46%) Frame = -1 Query: 74 TQHHHHDLSVATLHVHINHDDCLEIAVLKGDM 105 TQ HH + +L +H N I KGD+ Sbjct: 1033 TQ*FHH*SKLISLLLHTNL-----ITACKGDI 953 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NINE_ECOLI Q47270 Protein ninE homolog from lambdoid prophage DLP12 (56 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIRB_ECOLI P08201 Nitrite reductase [NAD(P)H] large subunit (1.7.1.4) (847 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIRC_ECOLI P0AC26 Probable nitrite transporter (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 4/13 (30%), Positives = 10/13 (76%) Frame = -2 Query: 163 LVCLAIWMALRTE 175 + C A+W+ +R++ Sbjct: 4212 ITCFAVWVVMRSK 4174 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 13/25 (52%) Frame = +1 Query: 104 ILPQTWLGNLVGSVFVAMLYSWGGG 128 ILP+ W G+ S FV + G G Sbjct: 6913 ILPEEWGGD---SPFVHVSAKKGTG 6978 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 7/17 (41%) Frame = +2 Query: 210 FGNHSEAYTLAGIGHNL 226 FGN S GH L Sbjct: 1421 FGNRSSVQFTDSKGHTL 1471 Score = 16.2 bits (30), Expect = 8.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = +3 Query: 208 SWFGNHSEAY 217 W+GN+ Y Sbjct: 6369 RWYGNNQPGY 6398 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NIRD_ECOLI P0A9I8 Nitrite reductase [NAD(P)H] small subunit (1.7.1.4) (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.21, Method: Composition-based stats. Identities = 7/9 (77%), Positives = 9/9 (100%) Frame = +3 Query: 37 DQVFAISNI 45 D+VFA+SNI Sbjct: 3759 DEVFALSNI 3785 Score = 15.4 bits (28), Expect = 4.1, Method: Composition-based stats. Identities = 5/22 (22%), Positives = 10/22 (45%) Frame = -1 Query: 10 IDDILPETGVCALLGDEQVAIF 31 + +LP G C + + + F Sbjct: 5899 VQPLLPHGGSCHFVVESSIFSF 5834 Score = 14.6 bits (26), Expect = 6.9, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = -3 Query: 89 QFSVKHYEARVKDGVVQLR 107 QFS+ +E +VQLR Sbjct: 4283 QFSLLVHEIAQSLLLVQLR 4227 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NLPA_ECOLI P04846 Lipoprotein 28 (Precursor) (272 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 212 LSPVHDSVFIE 222 L P+H +FIE Sbjct: 301 LMPLHKELFIE 333 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NLPB_ECOLI P0A903 Lipoprotein 34 (Precursor) (344 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 320 3e-91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 320 bits (820), Expect = 3e-91, Method: Compositional matrix adjust. Identities = 161/316 (50%), Positives = 201/316 (63%), Gaps = 1/316 (0%) Frame = +2 Query: 30 RYKRQVSGDXXXXXXXXXXXXXXXXGMILPVTSGDYAIPVTNGSGAVGKALDIRPPAQPL 89 RYKRQVSGD G+ILP+ G Y I + GAVGK LDIRPP QPL Sbjct: 578 RYKRQVSGDEAYLNAPALKRLNASQGIILPLQHGTYDIAQVSQQGAVGKQLDIRPPIQPL 757 Query: 90 ALVSGARTQFTGDTASLLVENGRGN-TLWPQVVSVLQAKNYTITQRDDAGQTLTTDWVQW 148 L+ G+R + T D + LL++N R N TLW Q+ +V+Q ++ I R DA QTLTTDW++W Sbjct: 758 VLLKGSRIESTADISKLLLDNNRQNDTLWSQITTVMQNESLPIADRQDANQTLTTDWIKW 937 Query: 149 NRLDEDEQYRGRYQISVKPQGYQQAVTVKLLNLEQAGKPVADAASMQRYSTEMMNVISAG 208 NR DED + GRYQISV+ QG Q A+ VK L L+Q K V +Q Y+ M+N + G Sbjct: 938 NRADEDVPFAGRYQISVQQQGNQLALVVKSLGLQQQEKMVTSNIEIQHYNRAMLNKLIEG 1117 Query: 209 LDKXXXXXXXXXXXXXXXXMDVQSAADDTGLPMLVVRGPFNVVWQRLPAALEKVGMKVTD 268 LDK ++VQ+A DD+ LP L+VR P+ +VWQRLP AL K+GM VT Sbjct: 1118LDKIRSNSNNAQNTDKIGRLEVQAARDDSALPRLIVRAPYAIVWQRLPPALAKIGMTVTK 1297 Query: 269 STRSQGNMAVTYKPLSDSDWQELGASDPGLASGDYKLQVGDLDNRSSLQFIDPKGHTLTQ 328 R QGN+AVTY P++ DW LGA DP L SG Y+LQVGD NRSS+QF D KGHTL Q Sbjct: 1298RDRQQGNIAVTYSPINSRDWDALGAQDPKLKSGSYQLQVGDFGNRSSVQFTDSKGHTLNQ 1477 Query: 329 SQNDALVAVFQAAFSK 344 QNDALVAV +AA ++ Sbjct: 1478QQNDALVAVLRAALNQ 1525 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +1 Query: 141 LTTDWVQWNRL 151 T+DW QW++ Sbjct: 4813 CTSDWAQWSKC 4845 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NLPC_ECOLI P23898 Probable lipoprotein nlpC (ORF-17) (Precursor) (154 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.5, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -1 Query: 117 GIYDTNNQFIH 127 G Y++ N F+H Sbjct: 3871 GFYNSQNLFVH 3839 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 11 LLLAGCSHHK 20 +LLA CS + Sbjct: 548 MLLAACSTEQ 577 Score = 15.0 bits (27), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 3 FCLILI 8 FC+ILI Sbjct: 1537 FCIILI 1520 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NLPD_ECOLI P0ADA3 Lipoprotein nlpD (Precursor) (379 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 365 YKGKSVNP 372 Y+G+ +NP Sbjct: 3009 YRGRDLNP 2986 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NLPE_ECOLI P40710 Lipoprotein nlpE (Copper homeostasis protein cutF) (Precursor) (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NLPI_ECOLI P0AFB1 Lipoprotein nlpI (Precursor) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -1 Query: 1 MKPFLRWCFVATALT 15 ++PF RWC +T Sbjct: 643 IEPF*RWCIKIGFIT 599 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = +2 Query: 241 GKYYLSLGDLDSATAL 256 G Y L +GD + +++ Sbjct: 1394 GSYQLQVGDFGNRSSV 1441 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 7/15 (46%) Frame = +2 Query: 12 TALTLAGCSNTSWRK 26 T LAG WRK Sbjct: 2012 TVKPLAGLVKRIWRK 2056 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 13/48 (27%), Positives = 18/48 (37%) Frame = -2 Query: 219 LKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH 266 L +D +TSL+ F+ Y+L L L L V H Sbjct: 2877 LCSDTKISTSLSLRNIAARFWRRAYFLIFSWLTQIFPLTALTVLLATH 2734 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NMPC_ECOLI P21420 Putative outer membrane porin protein nmpC (Precursor) (365 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.50, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 11/18 (61%) Frame = +2 Query: 288 DFGLRPSVAYLQSKGKDL 305 DFG R SV + SKG L Sbjct: 1418 DFGNRSSVQFTDSKGHTL 1471 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +1 Query: 305 LGVWGDQDLVKYV 317 L +WG + + +YV Sbjct: 3637 LTIWGKESI*RYV 3675 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NOHA_ECOLI P31061 Putative prophage Qin DNA-packaging protein NU1 homolog (189 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +1 Query: 99 LKNARDSAEVVETAFC 114 LKN + +V A+C Sbjct: 1969 LKNDQLHDPIVSEAYC 2016 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NOHB_ECOLI P31062 Prophage QSR' DNA-packaging protein NU1 homolog (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +1 Query: 99 LKNARDSAEVVETAFC 114 LKN + +V A+C Sbjct: 1969 LKNDQLHDPIVSEAYC 2016 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NORR_ECOLI P37013 Anaerobic nitric oxide reductase transcription regulator norR (504 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NORV_ECOLI Q46877 Anaerobic nitric oxide reductase flavorubredoxin (FlRd) (FlavoRb) (479 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.60, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +2 Query: 229 VVWRDNPTQIV 239 V+W DNP Q V Sbjct: 4691 VLWDDNPAQFV 4723 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 115 HHPEWNFNVVK 125 HHP + FNV+ Sbjct: 6678 HHPVFGFNVIS 6646 Score = 19.6 bits (39), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = +1 Query: 352 AVDRLSTRLQDAGFEMS 368 +VDRL + DAG + S Sbjct: 5428 SVDRLIQQFADAGLKKS 5478 Score = 17.7 bits (34), Expect = 5.3, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 1/27 (3%) Frame = +1 Query: 119 WNFNVVKTGDTLDIGNGKQL-IFVETP 144 +N VVK DTL G +L + V+ P Sbjct: 2920 FNTEVVKLVDTLP*GGSARLGLRVQIP 3000 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NORW_ECOLI P37596 Nitric oxide reductase FlRd-NAD(+) reductase (1.18.1.-) (Flavorubredoxin reductase) (FlRd-reductase) (FlavoRb reductase) (377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.6, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 15/26 (57%) Frame = +2 Query: 201 LLKSQLQGLEKTDSGIQATLDRQRNI 226 L KSQL+ + +Q L R++++ Sbjct: 5732 LRKSQLKQKSRQKVKVQRKLTRKKSL 5809 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NPD_ECOLI P75960 NAD-dependent deacetylase (3.5.1.-) (Regulatory protein SIR2 homolog) (279 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRDD_ECOLI P28903 Anaerobic ribonucleoside-triphosphate reductase (1.17.4.2) (712 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.5, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 9/35 (25%) Frame = -3 Query: 624 VWDYSYQHVPYYGTNTPIDE---------CYECGF 649 VW Y+HVP P+ + CY CGF Sbjct: 1217 VWVKRYRHVP----LVPLGDRFCLCFEHYCYYCGF 1125 Score = 18.1 bits (35), Expect = 5.9, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 7/33 (21%) Frame = -1 Query: 604 GFIC-YGEYPNIQHNL------KALEDVWDYSY 629 F C YG+ P + H+L L VW + + Sbjct: 6226 AFFCFYGQQPALLHDLLLTRRVYCLFSVW*FYF 6128 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRDG_ECOLI P0A9N8 Anaerobic ribonucleoside-triphosphate reductase-activating protein (1.97.1.-) (Class III anaerobic ribonucleotide reductase small component) (154 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 10/20 (50%) Frame = -3 Query: 26 CVHECPGCYNKSTWRVNSGQ 45 C H+ + + W V+SG Sbjct: 5156 CYHQNFLLFLEPMWSVHSGH 5097 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRDH_ECOLI P0AC65 Glutaredoxin-like protein nrdH (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.5, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 62 SGFRPD 67 SG+ PD Sbjct: 3116 SGYEPD 3099 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRDI_ECOLI P0A772 Protein nrdI (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRDR_ECOLI P0A8D0 Transcriptional repressor nrdR (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.75 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.75, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 55 NDVREPFNEEK 65 + +REPFN K Sbjct: 786 DSIREPFNSTK 754 Score = 16.2 bits (30), Expect = 4.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -3 Query: 3 CPFCFA 8 CP CFA Sbjct: 3803 CPVCFA 3786 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRFA_ECOLI P0ABK9 Cytochrome c-552 (1.7.2.2) (Ammonia-forming cytochrome c nitrite reductase) (Cytochrome c nitrite reductase) (Precursor) (478 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRFB_ECOLI P0ABL1 Cytochrome c-type protein nrfB (Precursor) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.15 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.15, Method: Compositional matrix adjust. Identities = 21/94 (22%), Positives = 38/94 (40%), Gaps = 2/94 (2%) Frame = +1 Query: 74 LPVTCT-NCHGQPSPQHREGVKDVMRFNEPMYKVGEQNSVCMSCHLPEQLQKAF-WPHDV 131 +P+ C S R G+ + N P++++ +N + E KAF W + Sbjct: 1864 IPIECVIRNRTAGSLVKRLGITENQVLNHPLFELFLKNDQLHDPIVSEAYCKAFGWASEA 2043 Query: 132 HVTKVACASCHSLHPQQDTMQTLSDKGRIKICVD 165 H+ ++ S + D + L D + I VD Sbjct: 2044 HLAQMKKLS----YQVNDVLSKLFDDAGL-ILVD 2130 Score = 19.6 bits (39), Expect = 0.53, Method: Compositional matrix adjust. Identities = 5/20 (25%), Positives = 11/20 (55%) Frame = -1 Query: 95 DVMRFNEPMYKVGEQNSVCM 114 D+ + P Y +G + +C+ Sbjct: 958 DIFIGSVPFYPIGSERLICI 899 Score = 16.5 bits (31), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 13/28 (46%) Frame = -1 Query: 55 PDTEGMHGKHASVINPNNKLPVTCTNCH 82 P T+ + + I PN +T NC+ Sbjct: 4873 PATQLRN*AYILTIAPNRLCRITFFNCY 4790 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRFC_ECOLI P0AAK7 Protein nrfC (Precursor) (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.71, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 15/41 (36%) Frame = -1 Query: 95 CDHAPCVDVCPTGASFRDAASGIVDVNPDLCVGCQYCIAAC 135 C H D PT + I D+NPD + + C Sbjct: 4054 CWHNHFTDHFPTTEGLEISCFSI-DINPDFNFLFMFFLGRC 3935 Score = 16.2 bits (30), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = +2 Query: 96 DHAPCVDVCP 105 HAP V CP Sbjct: 2 HHAPVVIYCP 31 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -1 Query: 134 ACPYRV 139 CPYR+ Sbjct: 4624 TCPYRI 4607 Score = 15.8 bits (29), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 134 ACPYRVRFIHPVTK 147 AC + F +P+TK Sbjct: 285 ACFGKFTFSYPLTK 244 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRFD_ECOLI P32709 Protein nrfD (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%) Frame = -2 Query: 25 IGISAGLVTLAVLLRR----FYPQAGGADSTLLRTTLIVGPGAVIL 66 ++AGLVTL LL R FY + S R + + +L Sbjct: 5889 FCLTAGLVTL--LLSRQFFLFYNRLTFCVSDFFRVSFLCTFTFCLL 5758 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -1 Query: 126 RWLPKLGIVQKVLSLLT 142 RW K+G + L+ +T Sbjct: 628 RWCIKIGFITAHLAFIT 578 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRFE_ECOLI P32710 Cytochrome c-type biogenesis protein nrfE (552 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 140 GRDLNP 145 GRDLNP Sbjct: 3003 GRDLNP 2986 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRFF_ECOLI P32711 Formate-dependent nitrite reductase complex subunit nrfF (Precursor) (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NRFG_ECOLI P32712 Formate-dependent nitrite reductase complex subunit nrfG (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 19 VFLCVGSY 26 +F C+GSY Sbjct: 4207 LFRCLGSY 4184 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NSRR_ECOLI P0AF63 HTH-type transcriptional repressor nsrR (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.36, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = -2 Query: 96 CHITPACRLKQALSKAVQ 113 CH P+C ALS Q Sbjct: 5388 CHAVPSCYSYYALSPNQQ 5335 Score = 16.5 bits (31), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 15/25 (60%) Frame = -3 Query: 75 RIGDVVRELEPLSLVNCSSEFCHIT 99 R+ DV+ + + +++N S H+T Sbjct: 422 RVSDVIGKRKVSAVINPSRLQAHLT 348 Score = 15.8 bits (29), Expect = 5.3, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 9/19 (47%) Frame = +1 Query: 59 RGKNGGIRLGKPASAIRIG 77 RG GG+ A RIG Sbjct: 2248 RGNLGGVIEAYEQVAKRIG 2304 Score = 15.0 bits (27), Expect = 9.2, Method: Composition-based stats. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -2 Query: 88 LVNCSSEFCHIT 99 L+N + CH T Sbjct: 6405 LINNLVDCCHTT 6370 Score = 14.6 bits (26), Expect = 9.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -1 Query: 87 SLVNCSSEFC 96 S+V C + FC Sbjct: 6244 SVVKCLAFFC 6215 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NSR_ECOLI P0A9E9 Regulatory protein nsr (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.087 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.087, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 12/18 (66%) Frame = -3 Query: 163 AEYLGVSYRHLLYVLAQF 180 AE L V RHL +LAQ+ Sbjct: 740 AECLTVCQRHLAVILAQY 687 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NTRB_ECOLI P0AFB5 Nitrogen regulation protein NR(II) (2.7.13.3) (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 281 ARIDVEDNGPGI 292 ARIDV PG+ Sbjct: 6725 ARIDVNAACPGV 6690 Score = 16.5 bits (31), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 330 IEFTSWPGHT 339 ++FT GHT Sbjct: 1439 VQFTDSKGHT 1468 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NTRC_ECOLI P0AFB8 Nitrogen regulation protein NR(I) (469 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 29 0.002 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 29.3 bits (64), Expect = 0.002, Method: Compositional matrix adjust. Identities = 17/42 (40%), Positives = 20/42 (47%) Frame = +1 Query: 261 FYRVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDLFHRLN 302 F + GG + V + A L QRV EGKF E RLN Sbjct: 175 FIQKGGQGIISVTANVAAGGMTELCQRVAEGKFTEA--GRLN 294 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 338 KLLHPETE 345 KLLHP +E Sbjct: 3090 KLLHPASE 3067 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDB_ECOLI P0AFC0 Dihydroneopterin triphosphate pyrophosphatase (3.6.1.-) (dATP pyrophosphohydrolase) (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDC_ECOLI P32664 NADH pyrophosphatase (3.6.1.22) (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 15/39 (38%) Frame = -2 Query: 191 SQPWPFPQSLMTAFMAEYDSGDIVIDPKELLEANWYRYD 229 S PW + F S D++ DP N+ R + Sbjct: 6705 SMPWCI*EGHHPVFGFNVISPDMLCDPSCFPCRNFGRTN 6589 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDD_ECOLI P32056 GDP-mannose mannosyl hydrolase (GDPMH) (3.6.1.-) (Colanic acid biosynthesis protein wcaH) (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect(2) = 3.2, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 8/17 (47%) Frame = +2 Query: 78 AGQFYGVWQHFYDDNFS 94 G+F V DNFS Sbjct: 3353 GGEFVHVGTKINRDNFS 3403 Score = 15.8 bits (29), Expect(2) = 3.2, Method: Composition-based stats. Identities = 6/20 (30%), Positives = 13/20 (65%) Frame = +1 Query: 31 FLLGKRTNRPAQGYWFVPGG 50 FLL ++ + + ++F+P G Sbjct: 3298 FLLFEKNDWAIRPFFFMPWG 3357 Score = 15.4 bits (28), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 72 LRLPITA 78 LRLP+T+ Sbjct: 394 LRLPMTS 414 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDE_ECOLI P45799 ADP compounds hydrolase nudE (3.6.1.-) (186 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDG_ECOLI P77788 CTP pyrophosphohydrolase (3.6.1.-) (135 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.8, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +2 Query: 111 QYPLAPADIPLLE 123 QYP + PLL+ Sbjct: 3779 QYPQSKPGTPLLK 3817 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDI_ECOLI P52006 Nucleoside triphosphatase nudI (3.6.1.-) (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +1 Query: 98 CVSANRE 104 CVS NR+ Sbjct: 1264 CVSKNRD 1284 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDJ_ECOLI P0AEI6 Phosphatase nudJ (3.6.1.-) (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDK_ECOLI P37128 GDP-mannose pyrophosphatase nudK (3.6.1.-) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 12/18 (66%) Frame = +3 Query: 52 LYNTKKKTVVLIRQFRVA 69 +YN KKK ++ I ++ + Sbjct: 1032 VYNNKKKWLLRISRYNIT 1085 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUDL_ECOLI P43337 Uncharacterized Nudix hydrolase nudL (3.6.1.-) (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +1 Query: 139 PLAQALHLGRYH 150 P+A+ + L YH Sbjct: 6010 PIAEQIELTDYH 6045 Score = 16.5 bits (31), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 150 HPLDIYRRG 158 HPL +YR G Sbjct: 1714 HPLLMYRYG 1688 Score = 16.2 bits (30), Expect = 4.7, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +1 Query: 145 HLGRYH 150 H+G YH Sbjct: 6637 HIGAYH 6654 Score = 16.2 bits (30), Expect = 5.5, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 15/32 (46%) Frame = -2 Query: 160 SHRVWLSWYEQYFVWGMTAGIIRELALQIGVK 191 S +W+S + YFV G R ++ G+ Sbjct: 6891 SKTLWISVWFIYFVDNNDNGDFRCFSMLDGLD 6796 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOA_ECOLI P0AFC3 NADH-quinone oxidoreductase subunit A (1.6.99.5) (NADH dehydrogenase I subunit A) (NDH-1 subunit A) (NUO1) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect(2) = 2.9, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 16/29 (55%) Frame = -3 Query: 24 IGLCCLMLVGGWFLGGRARARSKNVPFES 52 + LCC +L L ARA S++ F+S Sbjct: 6251 LKLCCKVLGFLLLLRPTARASSRSA-FDS 6168 Score = 16.2 bits (30), Expect(2) = 2.9, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 13/27 (48%) Frame = -2 Query: 82 ALYLFAWSTSIRESGWVGFVEAAIFIF 108 A +LF TS + + F IFIF Sbjct: 6156 AFFLFGSFTSPAATTAISFNLGIIFIF 6076 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOB_ECOLI P0AFC7 NADH-quinone oxidoreductase subunit B (1.6.99.5) (NADH dehydrogenase I subunit B) (NDH-1 subunit B) (NUO2) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOCD_ECOLI P33599 NADH-quinone oxidoreductase subunit C/D (1.6.99.5) (NADH dehydrogenase I subunit C/D) (NDH-1 subunit C/D) (NUO3/NUO4) (596 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -1 Query: 527 NESFQMIEATKGINSYY 543 NES Q ++A + S+Y Sbjct: 2392 NESLQSVQAQFHLKSFY 2342 Score = 18.9 bits (37), Expect = 3.2, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 9/25 (36%) Frame = +1 Query: 197 PEEWG---------MKRGTENEDFM 212 PEEWG K+GT +D + Sbjct: 6919 PEEWGGDSPFVHVSAKKGTGIDDLL 6993 Score = 17.7 bits (34), Expect = 7.0, Method: Compositional matrix adjust. Identities = 16/75 (21%), Positives = 30/75 (40%), Gaps = 11/75 (14%) Frame = +2 Query: 388 ASYEKAALQNTILKGRSQGVAAYGAKEALEWGTTGAGLRATGIDFDV-----------RK 436 A+ +K + ++ IL + G ++ L G R GI +++ + Sbjct: 4289 ATVKKVSRESIILDLGNNAEGIIGQEDMLPRENIRPGDRIRGILYEIRPEARGPQLFISR 4468 Query: 437 ARPYSGYENFDFEIP 451 +RP E F E+P Sbjct: 4469 SRPEMLIELFRIEVP 4513 Score = 17.3 bits (33), Expect = 7.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -3 Query: 364 VAHDLPRGWDRLLREFL 380 + H+LP + LR+FL Sbjct: 4562 LGHELPP*FRSTLRQFL 4512 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOE_ECOLI P0AFD1 NADH-quinone oxidoreductase subunit E (1.6.99.5) (NADH dehydrogenase I subunit E) (NDH-1 subunit E) (NUO5) (166 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOF_ECOLI P31979 NADH-quinone oxidoreductase subunit F (1.6.99.5) (NADH dehydrogenase I subunit F) (NDH-1 subunit F) (NUO6) (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 10 THPLTWRL 17 + PLTWRL Sbjct: 606 SSPLTWRL 583 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOG_ECOLI P33602 NADH-quinone oxidoreductase subunit G (1.6.99.5) (NADH dehydrogenase I subunit G) (NDH-1 subunit G) (NUO7) (908 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -1 Query: 104 PVCEEGGNCH 113 P+ GG+CH Sbjct: 5893 PLLPHGGSCH 5864 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOH_ECOLI P0AFD4 NADH-quinone oxidoreductase subunit H (1.6.99.5) (NADH dehydrogenase I subunit H) (NDH-1 subunit H) (NUO8) (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -1 Query: 275 TAFFMMMFILIRAS 288 TAFF+ ILI+ S Sbjct: 1552 TAFFLFCIILIQCS 1511 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 12/25 (48%) Frame = -1 Query: 264 LLPPFIWFALKTAFFMMMFILIRAS 288 LLP +W L F++ + I A Sbjct: 5416 LLPATLWLHLSCCSFLLQLLRIIAK 5342 Score = 16.9 bits (32), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -3 Query: 284 LIRASLPRPRYDQVM 298 L S+PRP+ Q++ Sbjct: 3095 LPSCSIPRPKT*QIV 3051 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOI_ECOLI P0AFD6 NADH-quinone oxidoreductase subunit I (1.6.99.5) (NADH dehydrogenase I subunit I) (NDH-1 subunit I) (NUO9) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.36, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 14/25 (56%) Frame = +3 Query: 37 PVYLPPRYRGRIVLTRDPDGEERCV 61 P+Y YR IVLT+ G + CV Sbjct: 5025 PMYQKANYRKLIVLTK--RGFKSCV 5093 Score = 16.2 bits (30), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +1 Query: 84 DGRWYPEFFRINFSRCIF 101 +GRW+ R +F + F Sbjct: 3115 EGRWFKSGSRNHF*KNFF 3168 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOJ_ECOLI P0AFE0 NADH-quinone oxidoreductase subunit J (1.6.99.5) (NADH dehydrogenase I subunit J) (NDH-1 subunit J) (NUO10) (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 2/47 (4%) Frame = -3 Query: 80 EIEQERQWLKPQVW-IGPAIL-SAIMLVVIVYAILGVNDQGIDGTPI 124 + +Q + +LK + PA+ SAI + ++A ++++G +GTPI Sbjct: 2435 DCKQPQCYLKRSGY*RKPAVCASAISP*IFLFADT-LSEKGANGTPI 2298 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOK_ECOLI P0AFE4 NADH-quinone oxidoreductase subunit K (1.6.99.5) (NADH dehydrogenase I subunit K) (NDH-1 subunit K) (NUO11) (100 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.60, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +2 Query: 1 MIPLQHG 7 ++PLQHG Sbjct: 659 ILPLQHG 679 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOL_ECOLI P33607 NADH-quinone oxidoreductase subunit L (1.6.99.5) (NADH dehydrogenase I subunit L) (NDH-1 subunit L) (NUO12) (613 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/10 (80%), Positives = 9/10 (90%) Frame = -2 Query: 150 SYLLIGFYYT 159 S LLIGFY+T Sbjct: 2292 SNLLIGFYHT 2263 Score = 17.3 bits (33), Expect = 8.3, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 4/41 (9%) Frame = -2 Query: 321 LALGVQAWDAAIF----HLMTHAFFKALLFLASGSVILACH 357 +A+ Q + IF + MTH F L +++ CH Sbjct: 6498 IAITHQCFFEFIFTTQDNFMTHFFSNQLRCFLINNLVDCCH 6376 Score = 17.3 bits (33), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 10/12 (83%) Frame = -3 Query: 431 RMIFIVFHGKEQ 442 +++ I+F GK+Q Sbjct: 3647 QIVSIIFSGKQQ 3612 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUOM_ECOLI P0AFE8 NADH-quinone oxidoreductase subunit M (1.6.99.5) (NADH dehydrogenase I subunit M) (NDH-1 subunit M) (NUO13) (509 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 152 FLIALWGHKASDG 164 +L +LWGH + Sbjct: 2512 YLFSLWGHHIKNA 2474 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUON_ECOLI P0AFF0 NADH-quinone oxidoreductase subunit N (1.6.99.5) (NADH dehydrogenase I subunit N) (NDH-1 subunit N) (NUO14) (485 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -2 Query: 70 DGFAMLYTGL 79 DGFA+LY L Sbjct: 3693 DGFALLYVTL 3664 Score = 16.9 bits (32), Expect = 8.6, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = +1 Query: 424 YYLRVAVSLYLHAPEQPGRDAP 445 LR +S + PE+ G D+P Sbjct: 6880 ERLRTELSQHGILPEEWGGDSP 6945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUPC_ECOLI P0AFF2 Nucleoside permease nupC (Nucleoside-transport system protein nupC) (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.34, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%) Frame = +2 Query: 149 ENFIAYKDILGKISRNRMYTMA 170 +NF K + +ISR R+Y+ A Sbjct: 3392 DNFSTGKSLGTQISRGRIYSRA 3457 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -3 Query: 91 FLKVLCPIVF 100 FLKV CP+ F Sbjct: 3818 FLKVGCPVCF 3789 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUPG_ECOLI P0AFF4 Nucleoside permease nupG (Nucleoside-transport system protein nupG) (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -3 Query: 135 IRIWGTIGFIM 145 I++ T+GFIM Sbjct: 140 IKLSPTLGFIM 108 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUPX_ECOLI P33021 Nucleoside permease nupX (416 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +2 Query: 136 LNISKIESFVAVTTIFLGQNE 156 LN + ++ VAV L QN+ Sbjct: 1469 LNQQQNDALVAVLRAALNQND 1531 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUSA_ECOLI P0AFF6 Transcription elongation protein nusA (N utilization substance protein A) (L factor) (495 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 741 0.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 741 bits (1912), Expect = 0.0, Method: Compositional matrix adjust. Identities = 370/506 (73%), Positives = 421/506 (83%), Gaps = 11/506 (2%) Frame = +2 Query: 1 MNKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFR 60 MNKEILAVVEAVSNEK+LPREKIFEALE ALATATKKK+EQEI+VRV IDRK+GDF+TFR Sbjct: 3839 MNKEILAVVEAVSNEKSLPREKIFEALEIALATATKKKHEQEIEVRVNIDRKTGDFETFR 4018 Query: 61 RWLVVDEVTQPTKEITLEAAR---YEDESLN--------LGDYVEDQIESVTFDRITTQT 109 RW VV EV PT+EITLEAA+ E+ N + Y+EDQI+SV FDRITTQT Sbjct: 4019 RWKVVSEVVMPTREITLEAAQEISKEEAQQNTPISTESEIPTYIEDQIKSVVFDRITTQT 4198 Query: 110 AKQVIVQKVREAERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLP 169 AKQVIVQKVREAERA+V++QFRE EG+I+T VKKV+R++I LDLGNNAE +I +EDMLP Sbjct: 4199 AKQVIVQKVREAERAVVIEQFREQEGKIVTATVKKVSRESIILDLGNNAEGIIGQEDMLP 4378 Query: 170 RENFRPGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIELFRXXXXXXXXXXXXXKAAARD 229 REN RPGDR+RG+LY +RPEARG QLF++RS+PEMLIELFR KAA RD Sbjct: 4379 RENIRPGDRIRGILYEIRPEARGPQLFISRSRPEMLIELFRIEVPEIDEELIEIKAAIRD 4558 Query: 230 PGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMA 289 P SRAKIAVKTNDKRIDP+GACVGMRGARVQAVS ELGGERIDIVLWDDNPAQFV+NAMA Sbjct: 4559 PASRAKIAVKTNDKRIDPIGACVGMRGARVQAVSNELGGERIDIVLWDDNPAQFVLNAMA 4738 Query: 290 PADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQ 349 PA+VASIVVDED TM+IAVE GN AQAIGRNGQNVRL SQLSGWELNVMT+++L+ K Q Sbjct: 4739 PAEVASIVVDEDAKTMNIAVEEGNSAQAIGRNGQNVRLVSQLSGWELNVMTINELKEKCQ 4918 Query: 350 AEAHAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRER 409 AE AID F ++L+IDE+ ATVLVE FS+LEELAYVP EL EI+ D+ ++ LR+R Sbjct: 4919 AETRTAIDMFIEHLEIDEECATVLVEAEFSSLEELAYVPESELPEIDSFDKKRLQELRDR 5098 Query: 410 AKNALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLAD 469 A+N L T+A +EES GDNKPADDLLNL +DRD+AFKLAA GVCTLEDLAEQG+ DLAD Sbjct: 5099 AQNVLTTLALKKEESFGDNKPADDLLNLASLDRDMAFKLAACGVCTLEDLAEQGVSDLAD 5278 Query: 470 IEGLTDEKAGALIMAARNICWFGDEA 495 IE L DEKAG LIMAARNICWFGD A Sbjct: 5279 IEELDDEKAGKLIMAARNICWFGDNA 5356 Score = 18.9 bits (37), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = +2 Query: 135 GEIITGVVKKVNRDNIS 151 GE + V K+NRDN S Sbjct: 3356 GEFVH-VGTKINRDNFS 3403 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUSB_ECOLI P0A780 N utilization substance protein B (Protein nusB) (139 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= NUSG_ECOLI P0AFG0 Transcription antitermination protein nusG (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OBG_ECOLI P42641 Small GTPase obgE/cgtA (390 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ODO1_ECOLI P0AFG3 2-oxoglutarate dehydrogenase E1 component (1.2.4.2) (Alpha-ketoglutarate dehydrogenase) (933 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 528 MHSFTWSPY 536 +HS T+SPY Sbjct: 2523 VHSCTYSPY 2497 Score = 17.7 bits (34), Expect = 10.0, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 8/13 (61%) Frame = +2 Query: 552 KRLQELAKRISTV 564 KRLQEL R V Sbjct: 5072 KRLQELRDRAQNV 5110 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ODO2_ECOLI P0AFG6 Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex (E2) (2.3.1.61) (Dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex) (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ODP1_ECOLI P0AFG8 Pyruvate dehydrogenase E1 component (1.2.4.1) (887 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 6.2, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 15/23 (65%) Frame = -2 Query: 3 ERFPNDVDPIETRDWLQAIESVI 25 +RF ND ++ +WL IE+++ Sbjct: 6300 DRFTNDNVAVDYSNWL--IETLL 6238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ODP2_ECOLI P06959 Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex (2.3.1.12) (E2) (Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex) (630 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 7.9, Method: Compositional matrix adjust. Identities = 11/38 (28%), Positives = 20/38 (52%), Gaps = 4/38 (10%) Frame = +1 Query: 597 ISLSFDHRVIDGADGARFITIINNTLSD----IRRLVM 630 I+ F+H +++ + A T + LSD ++RL M Sbjct: 1750 INNKFNHFIMNRLEAAGIPTQMERLLSDNEALVKRLEM 1863 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OGRK_ECOLI P37057 Prophage P2 OGR protein (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 26 RYHQCQN 32 RY+ CQN Sbjct: 1439 RYYGCQN 1419 Score = 16.2 bits (30), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = +2 Query: 11 AHARTSRYI 19 AHA TSR I Sbjct: 3137 AHATTSRKI 3163 Score = 14.2 bits (25), Expect = 5.1, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +1 Query: 3 HCPLCQ 8 CPLC+ Sbjct: 952 RCPLCR 969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OGT_ECOLI P0AFH0 Methylated-DNA--protein-cysteine methyltransferase (2.1.1.63) (6-O-methylguanine-DNA methyltransferase) (MGMT) (O-6-methylguanine-DNA-alkyltransferase) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +1 Query: 130 SNPISIVVPCHRV 142 +NPI++ C R+ Sbjct: 334 ANPIAVKWACKRL 372 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +3 Query: 157 QRKEWLLRHEGY 168 +K+WLLR Y Sbjct: 1041 NKKKWLLRISRY 1076 Score = 15.4 bits (28), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -3 Query: 132 PISIVVPCHRVIG 144 PIS +PC I Sbjct: 2609 PISAPLPCCNTIS 2571 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPA_ECOLI P0A910 Outer membrane protein A (Outer membrane protein II*) (Precursor) (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPC_ECOLI P06996 Outer membrane protein C (Porin ompC) (Outer membrane protein 1B) (Precursor) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.33, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 14/24 (58%) Frame = +2 Query: 289 DFGLRPSLAYLQSKGKNLGRGYDD 312 DFG R S+ + SKG L + +D Sbjct: 1418 DFGNRSSVQFTDSKGHTLNQQQND 1489 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -2 Query: 178 SGEGFTSGVTNNG 190 +GFT +T+NG Sbjct: 2031 PAKGFTVSLTDNG 1993 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +1 Query: 141 FMQQRGNGFATYRNT 155 F R NG+ YR+T Sbjct: 1033 FTTTRKNGYFEYRDT 1077 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +3 Query: 297 AYLQSKGKNLGR 308 YLQ +G +GR Sbjct: 2913 CYLQYRGGEIGR 2948 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPF_ECOLI P02931 Outer membrane protein F (Porin ompF) (Outer membrane protein 1A) (Outer membrane protein IA) (Outer membrane protein B) (Precursor) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPG_ECOLI P76045 Outer membrane protein G (Precursor) (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 1/73 (1%) Frame = +2 Query: 148 RFNGWLSMYKFANDLNTTGYADTRVETETGLQYT-FNETVALRVNYYLERGFNMDDSRNN 206 + +GW N+L A+TR + +++ +E A +E Sbjct: 4859 QLSGWELNVMTINELKEKCQAETRTAIDMFIEHLEIDEECA---TVLVE----------- 4996 Query: 207 GEFSTQEIRAYLP 219 EFS+ E AY+P Sbjct: 4997 AEFSSLEELAYVP 5035 Score = 16.2 bits (30), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 201 DDSRNNGEFST 211 +S NNG FST Sbjct: 1970 KNSSNNG*FST 1938 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPL_ECOLI P76773 Porin ompL (Precursor) (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPN_ECOLI P77747 Outer membrane protein N (Porin ompN) (Precursor) (377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.80, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 12/19 (63%) Frame = +2 Query: 290 DFGLRPAVSFLMSKGRDLH 308 DFG R +V F SKG L+ Sbjct: 1418 DFGNRSSVQFTDSKGHTLN 1474 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +2 Query: 139 NADNFMTGRANGVATYR 155 N DNF TG++ G R Sbjct: 3386 NRDNFSTGKSLGTQISR 3436 Score = 16.5 bits (31), Expect = 9.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +1 Query: 207 DLGMGFSAGAAYT 219 D+G F AGA+ T Sbjct: 2602 DMGASFGAGASST 2640 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPP_ECOLI P34210 Outer membrane protease ompP (3.4.23.-) (Precursor) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPR_ECOLI P0AA16 Transcriptional regulatory protein ompR (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 14/32 (43%) Frame = +2 Query: 164 GEFAVLKALVSHPREPLSRDKLMNLARGREYS 195 GEF + ++ + ++RGR YS Sbjct: 3356 GEFVHVGTKINRDNFSTGKSLGTQISRGRIYS 3451 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPT_ECOLI P09169 Protease 7 (3.4.23.49) (Protease VII) (Omptin) (Outer membrane protein 3B) (Protease A) (Precursor) (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 6/43 (13%) Frame = +1 Query: 195 RFKMPYIGLTGSYRYED-FELGGTF-----KYSGWVESSDNDE 231 R M + L R ED + G KY+G++ ND+ Sbjct: 397 RLPMTSLTLVNQKRVEDALKSAGLLS*LLGKYNGYITKISNDK 525 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPW_ECOLI P0A915 Outer membrane protein W (Precursor) (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OMPX_ECOLI P0A917 Outer membrane protein X (Precursor) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.69, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 14/28 (50%) Frame = +2 Query: 86 YGITAGPAYRINDWASIYGVVGVGYGKF 113 YG + P Y+ + A + ++ V + F Sbjct: 2984 YGFKSRPRYQFIEIACFWMMINVLFATF 3067 Score = 15.8 bits (29), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = -2 Query: 142 ENVALDFS 149 +NVA+D+S Sbjct: 6285 DNVAVDYS 6262 Score = 15.4 bits (28), Expect = 9.1, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 14/33 (42%) Frame = +2 Query: 38 QGQMNKMGGFNLKYRYEEDNSPLGVIGSFTYTE 70 Q N++GG + +DN V+ + E Sbjct: 4649 QAVSNELGGERIDIVLWDDNPAQFVLNAMAPAE 4747 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPDA_ECOLI P27298 Oligopeptidase A (3.4.24.70) (680 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.60, Method: Compositional matrix adjust. Identities = 11/20 (55%), Positives = 13/20 (65%), Gaps = 2/20 (10%) Frame = +1 Query: 551 QLEFGLFD--FRLHAEFRPD 568 +LEFGLF+ L EF PD Sbjct: 2134 KLEFGLFENKITLGDEFSPD 2193 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPGB_ECOLI P39401 Phosphoglycerol transferase I (2.7.8.20) (Phosphatidylglycerol--membrane-oligosaccharide glycerophosphotransferase) (763 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 8.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 8.8, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +3 Query: 646 ISRPESWGRWS 656 ISRP G+WS Sbjct: 4002 ISRPSVVGKWS 4034 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPGC_ECOLI P75920 Glucans biosynthesis protein C (2.1.-.-) (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 15/26 (57%) Frame = -1 Query: 214 VMQTLFYLPFFILGALAFIFPHLKAL 239 + L+Y+P F L +L I +L A+ Sbjct: 2485 IKNALYYVPLF-LASLKKIANNLNAI 2411 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 18/30 (60%), Gaps = 5/30 (16%) Frame = +1 Query: 206 SNGMFNFI-----VMQTLFYLPFFILGALA 230 S+G NF+ ++ TLF++ +LG ++ Sbjct: 2650 SSGSGNFMTRMTAILATLFFIVSLVLGNMS 2739 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 13/17 (76%), Gaps = 3/17 (17%) Frame = -3 Query: 102 LTLPQFIMLQ---YVKG 115 L+L QF+MLQ +V+G Sbjct: 3938 LSLMQFLMLQKSSHVEG 3888 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = -3 Query: 211 NFIVMQTLFYLPFFIL 226 NF+V + +LP ++ Sbjct: 5405 NFMVTSVMLFLPATVI 5358 Score = 16.5 bits (31), Expect = 9.1, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%) Frame = -3 Query: 81 KKWWKVRVERVGIPMLTAIPLLTL 104 K+W +V V+ V + +PL+ L Sbjct: 1247 KRWRRVLVQ*VWVKRYRHVPLVPL 1176 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPGD_ECOLI P40120 Glucans biosynthesis protein D (Precursor) (551 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.85, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 13/25 (52%) Frame = +1 Query: 155 DLGFAGFRVFKAPELARRDVVSFLG 179 D+G AG +AP VV+ +G Sbjct: 6496 DMGVAGESALRAP------VVTIMG 6552 Score = 18.9 bits (37), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 16/32 (50%) Frame = -1 Query: 450 KWARRFAVDFVGGDLKAAAPKGIEPVITLSSG 481 KW RFA+ + ++ P + +I+ S+ Sbjct: 3811 KWGARFALRILLSANTSSFPSTVTMIISPSTA 3716 Score = 18.9 bits (37), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -1 Query: 333 NPKGFGLLQLD 343 NP+ GL+QLD Sbjct: 3298 NPETRGLIQLD 3266 Score = 16.9 bits (32), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -1 Query: 503 WYPTSDS 509 +YPTSDS Sbjct: 2215 FYPTSDS 2195 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPGG_ECOLI P33136 Glucans biosynthesis protein G (Precursor) (511 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -2 Query: 312 LLQRGRDFS 320 + RGRDFS Sbjct: 3906 IFSRGRDFS 3880 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = +1 Query: 447 AQTSIGDNGEIVESTVRY 464 AQ GDN I +RY Sbjct: 637 AQCITGDNPAITAWNLRY 690 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPGH_ECOLI P62517 Glucans biosynthesis glucosyltransferase H (2.4.1.-) (847 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 13/19 (68%) Frame = -1 Query: 671 VGMAWLDLRFLFWLAPIVF 689 + M+ + +RFL L P+V+ Sbjct: 418 LAMSSVSVRFLLLLIPVVY 362 Score = 18.9 bits (37), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +1 Query: 412 SHYWGH 417 SHYW H Sbjct: 1582 SHYWSH 1599 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPPA_ECOLI P23843 Periplasmic oligopeptide-binding protein (Precursor) (543 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.84 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.84, Method: Compositional matrix adjust. Identities = 17/64 (26%), Positives = 22/64 (34%), Gaps = 12/64 (18%) Frame = +1 Query: 359 FGWSQEKR-----------NEEAKKLLAEAGYT-ADKPLTINLLYNTSDLHKKLAIAASS 406 FGW+ E N+ KL +AG D L L N L + + Sbjct: 2023 FGWASEAHLAQMKKLSYQVNDVLSKLFDDAGLILVDFKLEFGLFENKITLGDEFSPDGCR 2202 Query: 407 LWKK 410 LW K Sbjct: 2203 LWDK 2214 Score = 17.7 bits (34), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = -2 Query: 369 EAKKLLAEAGYTADKPLTIN 388 + K++ AG+ KPL I+ Sbjct: 147 QQNKIITNAGFYHAKPL*IS 88 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPPB_ECOLI P0AFH2 Oligopeptide transport system permease protein oppB (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPPC_ECOLI P0AFH6 Oligopeptide transport system permease protein oppC (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +1 Query: 215 VPNVLGVVVVYASLLVPSMI 234 +PN++G+ +L SMI Sbjct: 55 IPNIIGLKEATGNLERLSMI 114 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 145 NSFPFMF 151 N+FPF+F Sbjct: 4285 NNFPFLF 4265 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPPD_ECOLI P76027 Oligopeptide transport ATP-binding protein oppD (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 11/23 (47%), Positives = 13/23 (56%) Frame = +2 Query: 11 LAQQQADALLNVKDLRVTFSTPD 33 L QQQ DAL+ V LR + D Sbjct: 1469 LNQQQNDALVAV--LRAALNQND 1531 Score = 16.5 bits (31), Expect = 8.3, Method: Compositional matrix adjust. Identities = 13/48 (27%), Positives = 24/48 (50%) Frame = +2 Query: 113 PMTSLNPYMRVGEQLMEVLMLHKNMSKAEAFEESVRMLDAVKMPEARK 160 P+T P+ +G+Q M+++ K ++ A E VK+P +K Sbjct: 6035 PITMSLPHNTLGQQKMKMMPRLKEIAVVAAGE--------VKLPNRKK 6154 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OPPF_ECOLI P77737 Oligopeptide transport ATP-binding protein oppF (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = +2 Query: 315 RPVLEGSFRHSVSCLK 330 + VLE ++ +VSC K Sbjct: 6878 QSVLEQNYLSTVSCQK 6925 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ORN_ECOLI P0A784 Oligoribonuclease (3.1.-.-) (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OSMB_ECOLI P0ADA7 Osmotically-inducible lipoprotein B (Precursor) (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 5.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +1 Query: 22 SACSNWSKRDRN 33 +AC + ++ DRN Sbjct: 1258 AACVSKNRDDRN 1293 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OSMC_ECOLI P0C0L2 Peroxiredoxin osmC (1.11.1.15) (Osmotically-inducible protein C) (143 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.41, Method: Composition-based stats. Identities = 20/71 (28%), Positives = 38/71 (53%), Gaps = 3/71 (4%) Frame = -3 Query: 3 IHKKGQAHWEGDIKRGKGTVSTESGVLNQQPYGFNTRFEGEKGTNP-EELIGAAHAACF- 60 + ++GQ H +G IK+ KG ++ N++P N+ F+ +P +E +G CF Sbjct: 3380 LFQRGQTHPQG-IKK-KGLIAQSFFSNNKKPR--NSGFDTTGPYSPLKESLGMTSDKCFF 3213 Query: 61 -SMALSLMLGE 70 S ++S+ L + Sbjct: 3212 KSKSISVYLSK 3180 Score = 16.2 bits (30), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -1 Query: 88 KVDAGFAITK 97 +V +GF ITK Sbjct: 5173 QVVSGFVITK 5144 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OSME_ECOLI P0ADB1 Osmotically-inducible lipoprotein E (Activator of ntr-like gene protein) (Precursor) (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 5.3, Method: Composition-based stats. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +2 Query: 3 KNMAGILSAA 12 K+ GILSAA Sbjct: 3230 KSCRGILSAA 3259 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OSMF_ECOLI P33362 Putative osmoprotectant uptake system substrate-binding protein osmF (Precursor) (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OSMY_ECOLI P0AFH8 Osmotically-inducible protein Y (Precursor) (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OTC1_ECOLI P04391 Ornithine carbamoyltransferase chain I (2.1.3.3) (OTCase-1) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.67, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +3 Query: 208 QNGGNITLTEDVAK 221 N N+TLT+D+A Sbjct: 378 NNSRNLTLTDDIAN 419 Score = 16.5 bits (31), Expect = 8.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -1 Query: 2 SGFYHKHFLKLLD 14 +GF FLKL+D Sbjct: 4930 TGFSLAFFLKLVD 4892 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OTC2_ECOLI P06960 Ornithine carbamoyltransferase chain F (2.1.3.3) (OTCase-2) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.37, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 10/17 (58%) Frame = +2 Query: 272 LHCLPAFHDDQTTLGKQ 288 LHCL AF + GKQ Sbjct: 6572 LHCLIAFVRPKLRQGKQ 6622 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OTSA_ECOLI P31677 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (2.4.1.15) (Trehalose-6-phosphate synthase) (UDP-glucose-glucosephosphate glucosyltransferase) (Osmoregulatory trehalose synthesis protein A) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 185 FQTENDRLAFLDC 197 +TEN + FLD Sbjct: 6655 VETENGMVTFLDT 6693 Score = 16.9 bits (32), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 90 HYRLDLVQFQR 100 HYRLD ++ R Sbjct: 916 HYRLDKMEPSR 948 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OTSB_ECOLI P31678 Trehalose-phosphate phosphatase (TPP) (3.1.3.12) (Trehalose 6-phosphate phosphatase) (Trehalose-phosphatase) (Osmoregulatory trehalose synthesis protein B) (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 7 ETPELSAKYAW 17 +TP+L Y W Sbjct: 3300 KTPKLGV*YNW 3268 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OXAA_ECOLI P25714 Inner membrane protein oxaA (548 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.64, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 17/32 (53%) Frame = +1 Query: 488 DPMQQKIMTFMPVIFTVFFLWFPSGLVLYYIV 519 DP+ +I T M V VFFL GL+ ++ Sbjct: 2491 DPIG-RIGTTMYVTLLVFFLLISIGLIALIVL 2583 Score = 18.5 bits (36), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 10/23 (43%) Frame = +3 Query: 504 VFFLWFPSGLVLYYIVSNLVTII 526 FF+W P Y V N +I Sbjct: 2475 AFFMW*PHRENRYNYVRNAASIF 2543 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OXC_ECOLI P0AFI0 Probable oxalyl-CoA decarboxylase (4.1.1.8) (564 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= OXYR_ECOLI P0ACQ4 Hydrogen peroxide-inducible genes activator (Morphology and auto-aggregation control protein) (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= P5CR_ECOLI P0A9L8 Pyrroline-5-carboxylate reductase (P5C reductase) (P5CR) (1.5.1.2) (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.59 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.59, Method: Compositional matrix adjust. Identities = 11/44 (25%), Positives = 17/44 (38%) Frame = -2 Query: 132 SVTPNALVTPEDTADVLNIFRCFGEAEVIAEPMIHPVVGVSGSS 175 SV V D D FRCF + + P++G + + Sbjct: 6873 SVWFIYFVDNNDNGD----FRCFSMLDGLDRLWHDPIIGRNNQN 6754 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 149 NIFRCFGEAEV 159 N+FRC G V Sbjct: 4210 NLFRCLGSYAV 4178 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +2 Query: 123 PALVNAGMT 131 PAL GMT Sbjct: 1262 PALAKIGMT 1288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PA1_ECOLI P0A921 Phospholipase A1 (3.1.1.32) (3.1.1.4) (Detergent-resistant phospholipase A) (DR-phospholipase A) (Phosphatidylcholine 1-acylhydrolase) (Outer membrane phospholipase A) (OM PLA) (OMPLA) (Precursor) (289 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = -1 Query: 133 NYEPQLFLGFATDYRFAG 150 NY L + D+RF G Sbjct: 4174 NYRFNLVFNISRDFRFGG 4121 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAA_ECOLI P76077 Phenylacetic acid degradation protein paaA (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = -1 Query: 50 GNWITRAPTLRRKAILLAK 68 N +TRA R+ ILL+ Sbjct: 4411 SNAVTRAYVFTRQHILLSN 4355 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 14/21 (66%) Frame = +1 Query: 213 IKRFTNDELRQRFVDNTVPQV 233 I + +ND+ +RFV + V ++ Sbjct: 502 ITKISNDKDNKRFVADVVSRL 564 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +3 Query: 207 RSLTWKIKR 215 RSL+W+ +R Sbjct: 2238 RSLSWQFRR 2264 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAB_ECOLI P76078 Phenylacetic acid degradation protein paaB (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +1 Query: 40 RDAYTRRSEGC 50 R+ RRS GC Sbjct: 871 REPPHRRSSGC 903 Score = 14.6 bits (26), Expect = 6.5, Method: Composition-based stats. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -3 Query: 26 SLHAADERMALE 37 S+H+ + ALE Sbjct: 5114 SVHSGHDHAALE 5079 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAC_ECOLI P76079 Phenylacetic acid degradation protein paaC (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAD_ECOLI P76080 Phenylacetic acid degradation protein paaD (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = -1 Query: 50 WVIGFTPTYSGCPATEHL 67 + F P Y ++EHL Sbjct: 5644 YEFQFVPIYFFHRSSEHL 5591 Score = 16.2 bits (30), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 129 CPRCASV 135 C RCAS+ Sbjct: 2054 CARCASL 2034 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAE_ECOLI P76081 Probable phenylacetic acid degradation NADH oxidoreductase paaE (1.-.-.-) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.062 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.062, Method: Compositional matrix adjust. Identities = 12/29 (41%), Positives = 17/29 (58%) Frame = +2 Query: 327 DELAAGYVLSCQALPLTSDVVVDFDAKGM 355 D+ A +VL+ A + +VVD DAK M Sbjct: 4700 DDNPAQFVLNAMAPAEVASIVVDEDAKTM 4786 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +3 Query: 260 DGQKVTVRQDGRDREIVLN 278 DG+ + V DG+D L+ Sbjct: 3723 DGEMIIVTVDGKDEVFALS 3779 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 59 ICRSYLPGE 67 +CR LPGE Sbjct: 3512 VCRC*LPGE 3538 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAF_ECOLI P76082 Probable enoyl-CoA hydratase paaF (4.2.1.17) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.61, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 10/12 (83%) Frame = +1 Query: 89 QAFNKPLIAAVN 100 Q+FNKP +A VN Sbjct: 6241 QSFNKP-VAVVN 6273 Score = 19.2 bits (38), Expect = 0.87, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 13/25 (52%) Frame = -1 Query: 175 SDVFPSDLTLEYALQLASKMARHSP 199 SD++PS LT Y + + H P Sbjct: 2245 SDLYPSFLTSFYPTSDSHRGKTHHP 2171 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +1 Query: 78 NDTRPQLWARLQAFNK 93 NDT R+QAF++ Sbjct: 1693 NDTSAMDGQRIQAFDR 1740 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAG_ECOLI P77467 Probable enoyl-CoA hydratase paaG (4.2.1.17) (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 1/26 (3%) Frame = +2 Query: 67 NDRNVDPTGPAPDL-GMSVERFYNPL 91 ND+ +DP G + G V+ N L Sbjct: 4592 NDKRIDPIGACVGMRGARVQAVSNEL 4669 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAH_ECOLI P76083 Probable 3-hydroxybutyryl-CoA dehydrogenase (1.1.1.157) (Beta-hydroxybutyryl-CoA dehydrogenase) (BHBD) (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAI_ECOLI P76084 Acyl-coenzyme A thioesterase paaI (3.1.2.-) (Phenylacetic acid degradation protein paaI) (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAJ_ECOLI P0C7L2 Beta-ketoadipyl-CoA thiolase (2.3.1.174) (3-oxoadipyl-CoA thiolase) (401 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +3 Query: 104 IKAGDGDLLIA 114 IKA DG+++I Sbjct: 3711 IKAVDGEMIIV 3743 Score = 16.5 bits (31), Expect = 9.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 216 VVTEIQH 222 +VTE+QH Sbjct: 1698 IVTELQH 1678 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAK_ECOLI P76085 Phenylacetate-coenzyme A ligase (6.2.1.30) (Phenylacetyl-CoA ligase) (PA-CoA ligase) (437 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +3 Query: 299 VIRYRTRD 306 ++R+RTRD Sbjct: 3057 LLRFRTRD 3080 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAX_ECOLI P76086 Phenylacetic acid degradation operon negative regulatory protein paaX (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 31 LSHRGGEI 38 L +RGGEI Sbjct: 2919 LQYRGGEI 2942 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAAY_ECOLI P77181 Phenylacetic acid degradation protein paaY (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PABA_ECOLI P00903 Para-aminobenzoate synthase glutamine amidotransferase component II (2.6.1.85) (ADC synthase) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.93, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 133 EPDSLPAC 140 EPD LP+C Sbjct: 3107 EPDELPSC 3084 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PABB_ECOLI P05041 Para-aminobenzoate synthase component 1 (2.6.1.85) (Para-aminobenzoate synthase component I) (ADC synthase) (453 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.96 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.96, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%) Frame = -1 Query: 341 VSTITAQLPEQLHASDLLRAAF 362 V I LP + H+S LLR F Sbjct: 6526 VKQIHPPLPYRDHSSVLLRVHF 6461 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = -1 Query: 80 LQVLQQVLDRADIRPTHN 97 LQ+L+ + ADI HN Sbjct: 5368 LQLLRIIAKPADIAGCHN 5315 Score = 16.9 bits (32), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 179 TLTSDW 184 TLT+DW Sbjct: 911 TLTTDW 928 Score = 16.9 bits (32), Expect = 7.8, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -1 Query: 382 LEPQRRNAWCGSIGYLS 398 +EP R WC IG+++ Sbjct: 643 IEPF*R--WCIKIGFIT 599 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PABC_ECOLI P28305 Aminodeoxychorismate lyase (4.1.3.38) (4-amino-4-deoxychorismate lyase) (ADC lyase) (ADCL) (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 4/25 (16%) Frame = +1 Query: 128 VRLGRNPHLAGIK----HLNRLEQV 148 VRL + P++ G+K +L RL + Sbjct: 40 VRLAQIPNIIGLKEATGNLERLSMI 114 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 3/28 (10%) Frame = -1 Query: 110 PAHYDRLRNEGIT---LALSPVRLGRNP 134 P+H+ ++ T + L P+R +NP Sbjct: 3325 PSHFFQITKNPETRGLIQLDPIRR*KNP 3242 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAL_ECOLI P0A912 Peptidoglycan-associated lipoprotein (Precursor) (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +2 Query: 147 SYGKEKPA 154 S+G KPA Sbjct: 5141 SFGDNKPA 5164 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PANB_ECOLI P31057 3-methyl-2-oxobutanoate hydroxymethyltransferase (2.1.2.11) (Ketopantoate hydroxymethyltransferase) (KPHMT) (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 10/21 (47%) Frame = -3 Query: 223 GGHIPKFAKNFLAETGDIRAA 243 GH+P F+ L + R A Sbjct: 6008 SGHLPSFSAAILRASSATRFA 5946 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = -2 Query: 105 RAGANMVKIEGGEWLVETV 123 R + V ++ WL+ET+ Sbjct: 6297 RFTNDNVAVDYSNWLIETL 6241 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 13/53 (24%), Positives = 19/53 (35%) Frame = -1 Query: 206 NVTDGQILVMHDAFGITGGHIPKFAKNFLAETGDIRAAVRQYMAEVESGVYPG 258 + DG+ LV+H N + V Q + SG+YPG Sbjct: 895 TIGDGEALVLHH------------CGNL*P*CIVLTIIV*Q*FTNISSGLYPG 773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PANC_ECOLI P31663 Pantothenate synthetase (PS) (6.3.2.1) (Pantoate--beta-alanine ligase) (Pantoate-activating enzyme) (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.43, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 17/28 (60%), Gaps = 4/28 (14%) Frame = -2 Query: 138 FNLVQPDI----ACFGEKDFQQLALIRK 161 FN++ PD+ +CF ++F + I++ Sbjct: 6660 FNVISPDMLCDPSCFPCRNFGRTNAIKQ 6577 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAND_ECOLI P0A790 Aspartate 1-decarboxylase (4.1.1.11) (Aspartate alpha-decarboxylase) (Aspartate 1-decarboxylase beta chain) (Aspartate 1-decarboxylase alpha chain) (Precursor) (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 8.1, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +3 Query: 21 HYEGSC 26 H+ GSC Sbjct: 6540 HHHGSC 6557 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PANE_ECOLI P0A9J4 2-dehydropantoate 2-reductase (1.1.1.169) (Ketopantoate reductase) (KPA reductase) (KPR) (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.41, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 16/28 (57%) Frame = -1 Query: 83 LASTLPVTTPILLIHNGMGTIEELQNIQ 110 LAS + + I NG+ T E LQ++Q Sbjct: 2452 LASLKKIANNLNAI*NGVDTNESLQSVQ 2369 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = +3 Query: 223 SAEDLRDYVMQVIDAT 238 +AED DY+ + I+ T Sbjct: 3621 TAEDYTDYLGERINLT 3668 Score = 16.5 bits (31), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 5/9 (55%) Frame = +1 Query: 184 NPLTAIWNC 192 NP+ W C Sbjct: 337 NPIAVKWAC 363 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PANF_ECOLI P16256 Sodium/pantothenate symporter (Pantothenate permease) (483 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = -1 Query: 231 DDILSPAFMTSFW 243 + L P+F+TSF+ Sbjct: 2248 ESDLYPSFLTSFY 2210 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PARC_ECOLI P0AFI2 DNA topoisomerase 4 subunit A (5.99.1.-) (Topoisomerase IV subunit A) (752 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -1 Query: 83 YEAMVLMAQPFSYRYP 98 Y + L++ FSY +P Sbjct: 1327 YSNVTLLSVTFSYGHP 1280 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PARE_ECOLI P20083 DNA topoisomerase 4 subunit B (5.99.1.-) (Topoisomerase IV subunit B) (630 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.3, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 2/34 (5%) Frame = -1 Query: 518 HVYVALPPL--YRIDLGKEVYYALTEEEKEGVLE 549 H + +L P+ + + K+ Y ++TEE + VLE Sbjct: 2914 HFFRSLEPI*NFFVLRYKDKY*SITEEYRCSVLE 2813 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PAT_ECOLI P42588 Putrescine aminotransferase (2.6.1.82) (Putrescine--2-oxoglutaric acid transaminase) (PATase) (PAT) (459 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 12/18 (66%), Gaps = 1/18 (5%) Frame = -2 Query: 184 SLG-ALSATAKSTFRKPF 200 SLG ALS+ A T R+P Sbjct: 1218 SLGKALSSRAACTSRRPI 1165 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PBL_ECOLI Q46790 Putative peptidoglycan-binding-like protein (Precursor) (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.88 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.88, Method: Compositional matrix adjust. Identities = 10/41 (24%), Positives = 15/41 (36%), Gaps = 7/41 (17%) Frame = -1 Query: 97 DLLDNPCLNIKIGTEILYNHFSRCGVTW-------QCLGTY 130 D + C N L NH+ + +CLG+Y Sbjct: 4306 DFFNGSCNNFPFLFTKLLNHYCSFSFAYFLYNNLFRCLGSY 4184 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PBP2_ECOLI P0AD65 Penicillin-binding protein 2 (PBP-2) (633 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.5, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = +1 Query: 117 AAFRKERARSHRFTSIPV 134 AAF RAR + T I V Sbjct: 6703 AAFTSMRARGAQATDIVV 6756 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PBP7_ECOLI P0AFI5 D-alanyl-D-alanine endopeptidase (DD-endopeptidase) (3.4.21.-) (Penicillin-binding protein 7) (PBP-7) (Precursor) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PBPA_ECOLI P02918 Penicillin-binding protein 1A (PBP-1a) (PBP1a) (Penicillin-insensitive transglycosylase) (2.4.2.-) (Peptidoglycan TGase) (Penicillin-sensitive transpeptidase) (3.4.-.-) (DD-transpeptidase) (850 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PBPB_ECOLI P02919 Penicillin-binding protein 1B (PBP-1b) (PBP1b) (Murein polymerase) (Penicillin-insensitive transglycosylase) (2.4.1.129) (Peptidoglycan glycosyltransferase) (Peptidoglycan TGase) (Penicillin-sensitive transpeptidase) (3.4.-.-) (DD-transpeptidase) (844 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PBPC_ECOLI P76577 Penicillin-binding protein 1C (PBP-1c) (PBP1c) (Penicillin-insensitive transglycosylase) (2.4.2.-) (Peptidoglycan TGase) (Transpeptidase-like module) (770 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.55, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 16/31 (51%) Frame = +1 Query: 634 LDENGKRVAADCPQARQEMINVWPLPLEPWL 664 ++E+ KRVA + + E WP P+ + Sbjct: 5935 IEEDAKRVAEEARKMAAENEGKWPEPIAEQI 6027 Score = 20.0 bits (40), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 14/22 (63%) Frame = +2 Query: 102 AAWQDLTSGRVISGGSTLTMQV 123 + WQ + ++I+ S+L MQV Sbjct: 5402 SCWQQRSQLQLIASYSSLLMQV 5467 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PCKA_ECOLI P22259 Phosphoenolpyruvate carboxykinase [ATP] (PEP carboxykinase) (PEPCK) (4.1.1.49) (Phosphoenolpyruvate carboxylase) (540 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 467 LDNAETFTLPMFNLAI 482 L AET LPM +L + Sbjct: 376 LITAETLRLPMTSLTL 423 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PCNB_ECOLI P0ABF1 Poly(A) polymerase (PAP) (2.7.7.19) (Plasmid copy number protein) (465 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PDHR_ECOLI P0ACL9 Pyruvate dehydrogenase complex repressor (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 1/27 (3%) Frame = +1 Query: 75 QSSLWQSFSDPLV-ELLSDHPESQYDL 100 QSS W++ S P E +S P+ D+ Sbjct: 2755 QSSEWENLSQPAKDEKISAPPKPSSDI 2835 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PDXA_ECOLI P19624 4-hydroxythreonine-4-phosphate dehydrogenase (1.1.1.262) (4-(phosphohydroxy)-L-threonine dehydrogenase) (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PDXB_ECOLI P05459 Erythronate-4-phosphate dehydrogenase (1.1.1.290) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PDXH_ECOLI P0AFI7 Pyridoxine/pyridoxamine 5'-phosphate oxidase (1.4.3.5) (PNP/PMP oxidase) (PNPOx) (Pyridoxal 5'-phosphate synthase) (218 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 196 HRLHDRFLYQREN 208 HR+ + +LY R N Sbjct: 4123 HRI*NPYLY*RPN 4161 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PDXJ_ECOLI P0A794 Pyridoxine 5'-phosphate synthase (PNP synthase) (2.6.99.2) (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PDXK_ECOLI P40191 Pyridoxine kinase (2.7.1.35) (Pyridoxal kinase) (Vitamin B6 kinase) (Pyridoxamine kinase) (PN/PL/PM kinase) (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 2/40 (5%) Frame = +3 Query: 240 ISGLLKGKALTDAVHRAGLRVLEV--MRYTQQHESDELIL 277 I L+K AL A LEV MRY +HE +L Sbjct: 4368 ICCLVKTYALVTA--------LEVFCMRYVLKHEVPNYLL 4463 Score = 16.2 bits (30), Expect = 7.5, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 14/25 (56%) Frame = +1 Query: 256 AGLRVLEVMRYTQQHESDELILPPL 280 AGL+ E TQQ + E++L L Sbjct: 5461 AGLKKSETSSVTQQEK--EILLAHL 5529 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PDXY_ECOLI P77150 Pyridoxamine kinase (PM kinase) (2.7.1.35) (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 111 CDPVMGH 117 C PV+GH Sbjct: 1319 CYPVVGH 1299 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PEPB_ECOLI P37095 Peptidase B (3.4.11.23) (Aminopeptidase B) (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +1 Query: 336 AQENEPFWRLPLAE 349 A ENE W P+AE Sbjct: 5980 AAENEGKWPEPIAE 6021 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +2 Query: 150 EDLREQGYMGLHTV 163 EDL EQG L + Sbjct: 5240 EDLAEQGVSDLADI 5281 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PEPD_ECOLI P15288 Aminoacyl-histidine dipeptidase (3.4.13.3) (Xaa-His dipeptidase) (X-His dipeptidase) (Beta-alanyl-histidine dipeptidase) (Carnosinase) (Cysteinylglycinase) (Peptidase D) (485 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = -1 Query: 438 KKPYPEMDMVSI 449 K+PYP + +V+I Sbjct: 2614 KRPYPHLYLVAI 2579 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 10/40 (25%), Positives = 20/40 (50%), Gaps = 2/40 (5%) Frame = -2 Query: 357 NVEIHCLIRSLIDSGKDYVVSMLDSLGKLAGAK--TEAKG 394 EIH S++ +Y+++++ L L + + AKG Sbjct: 2139 QFEIH*NQTSIVKQFTEYIINLITQLFHLRQMRFTSPAKG 2020 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 12/40 (30%), Positives = 17/40 (42%) Frame = -2 Query: 346 LNVGVVTMTDNNVEIHCLIRSLIDSGKDYVVSMLDSLGKL 385 ++V + DNN D+G SMLD L +L Sbjct: 6876 ISVWFIYFVDNN-----------DNGDFRCFSMLDGLDRL 6790 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 11/22 (50%) Frame = +1 Query: 52 VGNILIRKPATAGMENRKPVVL 73 VG RKP+T KPV + Sbjct: 6202 VGRKSKRKPSTLQQSFNKPVAV 6267 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PEPE_ECOLI P0A7C6 Peptidase E (3.4.13.21) (Alpha-aspartyl dipeptidase) (Asp-specific dipeptidase) (Dipeptidase E) (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -1 Query: 154 INPHFT 159 +NPHF+ Sbjct: 469 VNPHFS 452 Score = 15.8 bits (29), Expect = 8.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 91 FQLLKQCRERGLL 103 FQ+ K RGL+ Sbjct: 3313 FQITKNPETRGLI 3275 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PEPQ_ECOLI P21165 Xaa-Pro dipeptidase (X-Pro dipeptidase) (3.4.13.9) (Proline dipeptidase) (Prolidase) (Imidodipeptidase) (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = -2 Query: 28 LDALLIHSG 36 LDALLI+ G Sbjct: 444 LDALLINKG 418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PEPT_ECOLI P29745 Peptidase T (3.4.11.4) (Tripeptide aminopeptidase) (Aminotripeptidase) (Tripeptidase) (408 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.69, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 14/28 (50%) Frame = +1 Query: 264 ASMKGTVERADMHYIIRDFDRKQFEARK 291 A +K +VER I D R EARK Sbjct: 5893 AELKRSVEREVRRKIEEDAKRVAEEARK 5976 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = +1 Query: 251 PEMTEGYEGFYHLASMKGT 269 PE G F H+++ KGT Sbjct: 6919 PEEWGGDSPFVHVSAKKGT 6975 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PERM_ECOLI P0AFI9 Putative permease perM (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -1 Query: 280 SCFAVYLI 287 SCF YLI Sbjct: 4444 SCFRTYLI 4421 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PERR_ECOLI Q57083 HTH-type transcriptional regulator perR (Peroxide resistance protein perR) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 11/19 (57%) Frame = +2 Query: 58 TREITLTKEGEILLEHIQR 76 TREITL EI E Q+ Sbjct: 4052 TREITLEAAQEISKEEAQQ 4108 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PFLA_ECOLI P0A9N4 Pyruvate formate-lyase 1-activating enzyme (1.97.1.4) (PFL-activating enzyme 1) (Formate-C-acetyltransferase-activating enzyme 1) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.60, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 10/36 (27%) Frame = +1 Query: 178 DDSAHRLGEFTRDMGN----------VEKIELLPYH 203 ++ A R+ E R M E+IEL YH Sbjct: 5938 EEDAKRVAEEARKMAAENEGKWPEPIAEQIELTDYH 6045 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PFLB_ECOLI P09373 Formate acetyltransferase 1 (2.3.1.54) (Pyruvate formate-lyase 1) (760 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.29, Method: Compositional matrix adjust. Identities = 11/45 (24%), Positives = 22/45 (48%), Gaps = 2/45 (4%) Frame = -3 Query: 668 FSIVPNALGKDDEV--RKTNLAGLMDGYFHHEASIEGGQHLNVNV 710 FS++PN + V R T+ G++ F + + E + + V + Sbjct: 1934 FSVIPNRFTSEPAVRLRMTHSIGIISNLFTNASLSESSRSICVGI 1800 Score = 21.2 bits (43), Expect = 0.84, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 17/32 (53%) Frame = +3 Query: 536 SLSAIKYAKVKPIRDEDGLAIDFEIEGEYPQF 567 S S K AK+KP++ L+ ++ PQF Sbjct: 4893 STSLRKNAKLKPVQRLICLSNILKLMKSAPQF 4988 Score = 18.9 bits (37), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 12/18 (66%) Frame = -3 Query: 242 GYDISGPATNAQEAIQWT 259 G+D +GP + +E++ T Sbjct: 3284 GFDTTGPYSPLKESLGMT 3231 Score = 18.1 bits (35), Expect = 5.8, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 13/27 (48%) Frame = -3 Query: 498 IHYMHDKYSYEASLMALHDRDVIRTMA 524 +H HD + EAS + VIR + Sbjct: 5111 VHSGHDHAALEASFCQNYQFPVIRFLV 5031 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PFLC_ECOLI P32675 Pyruvate formate-lyase 2-activating enzyme (1.97.1.4) (PFL-activating enzyme 2) (Formate-C-acetyltransferase-activating enzyme 2) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +1 Query: 249 YGEPKYRLL 257 YG P+Y L+ Sbjct: 5317 YGSPQYLLV 5343 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PFLD_ECOLI P32674 Formate acetyltransferase 2 (2.3.1.54) (Pyruvate formate-lyase 2) (765 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.56, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -3 Query: 432 HDIAMFNLLKVMEICLHEN 450 HD+ + NL +C H+N Sbjct: 5198 HDLNLLNLTSRQRVCYHQN 5142 Score = 18.1 bits (35), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = +2 Query: 117 PYWEKRSMKDFING 130 P W++ + F+NG Sbjct: 215 PMWQQVE*RSFVNG 256 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PFLE_ECOLI P75794 Putative pyruvate formate-lyase 3-activating enzyme (1.97.1.4) (PFL-activating enzyme 3) (Formate-C-acetyltransferase-activating enzyme 3) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +2 Query: 260 LPYHTLGINKYHLL 273 LP++TLG K ++ Sbjct: 6050 LPHNTLGQQKMKMM 6091 Score = 16.2 bits (30), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 7/18 (38%) Frame = -3 Query: 161 GIHTAVETCLHVPWKYIA 178 G H C H+ IA Sbjct: 3542 GTHLVANICTHINGDAIA 3489 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PFLF_ECOLI P75793 Putative formate acetyltransferase 3 (2.3.1.54) (Pyruvate formate-lyase 3) (810 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -1 Query: 258 PQTFWQALQLCYFIQLILQI 277 P T W L C F+ +L+I Sbjct: 5410 PATLWLHLSCCSFLLQLLRI 5351 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGAA_ECOLI P69434 Biofilm PGA synthesis protein pgaA (Precursor) (807 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.0, Method: Compositional matrix adjust. Identities = 10/15 (66%), Positives = 10/15 (66%) Frame = +2 Query: 644 GNSAQAYVRWYQNER 658 GNSAQA R QN R Sbjct: 4805 GNSAQAIGRNGQNVR 4849 Score = 18.9 bits (37), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +2 Query: 265 ILWHDNP 271 +LW DNP Sbjct: 4691 VLWDDNP 4711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGAB_ECOLI P75906 Biofilm PGA synthesis lipoprotein pgaB (3.-.-.-) (Precursor) (672 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = -1 Query: 35 RESLLAEQPWPHNGFVAI 52 R L ++P+PH VAI Sbjct: 2632 RHPLQMKRPYPHLYLVAI 2579 Score = 19.6 bits (39), Expect = 1.7, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 13/21 (61%) Frame = -1 Query: 652 NQPEIDLIRPEFSTAWYPKND 672 N E DL P F T++YP +D Sbjct: 2257 NCHESDLY-PSFLTSFYPTSD 2198 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGAC_ECOLI P75905 Biofilm PGA synthesis N-glycosyltransferase pgaC (2.4.-.-) (441 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 12/23 (52%) Frame = -3 Query: 117 KTRAILDRMAAQIPHLRVIHLAQ 139 KTR + A I +RVI L + Sbjct: 2726 KTRLTIKNNVANIAVIRVIKLPE 2658 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +3 Query: 305 LKNMTRLWRKENF 317 +K+ + W K+NF Sbjct: 4968 MKSAPQFWSKQNF 5006 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGAD_ECOLI P69432 Biofilm PGA synthesis protein pgaD (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -2 Query: 26 WTLFA 30 WTLFA Sbjct: 3270 WTLFA 3256 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGK_ECOLI P0A799 Phosphoglycerate kinase (2.7.2.3) (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGMB_ECOLI P77366 Putative beta-phosphoglucomutase (Beta-PGM) (5.4.2.6) (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +2 Query: 162 VPPQACIGI 170 VPPQ C+ + Sbjct: 2627 VPPQLCLDL 2653 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 28 IAAEIGISID 37 +AAEI S+D Sbjct: 5407 LAAEISTSVD 5436 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -3 Query: 88 ELTVNAVLPGI 98 + VNA PG+ Sbjct: 6722 RIDVNAACPGV 6690 Score = 15.8 bits (29), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +3 Query: 2 KLQGVIFDLDG 12 K QG+I +DG Sbjct: 3696 KWQGIIKAVDG 3728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGM_ECOLI P36938 Phosphoglucomutase (PGM) (5.4.2.2) (Glucose phosphomutase) (546 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +1 Query: 431 EHYNELAKRFGAP 443 E Y ++AKR G P Sbjct: 2272 EAYEQVAKRIGVP 2310 Score = 19.6 bits (39), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 15/28 (53%) Frame = +3 Query: 110 IVQENNGFTPTPAVSNAILVHNKKGGPL 137 +V++NN AV IL+H + G + Sbjct: 561 LVRQNNVINAK*AVMKPILMHQR*KGSM 644 Score = 17.3 bits (33), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 332 LFQHRPQWGK 341 LFQ RP W + Sbjct: 200 LFQ*RPMWQQ 229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGPA_ECOLI P18200 Phosphatidylglycerophosphatase A (3.1.3.27) (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.13, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 16/34 (47%) Frame = +2 Query: 53 TFLPWQLYSLVVMLGICIGVYLCHQTAKDMGVHD 86 TF W++ S VVM I + + +K+ + Sbjct: 4010 TFRRWKVVSEVVMPTREITLEAAQEISKEEAQQN 4111 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGPB_ECOLI P0A924 Phosphatidylglycerophosphatase B (3.1.3.27) (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.37, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 14/23 (60%) Frame = -3 Query: 224 AVATWLAQRICGPLTPPAEENRE 246 A+A W+A +CG +TP + + Sbjct: 6821 ALACWMASIVCG-MTPSSAATTK 6756 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 3/11 (27%), Positives = 9/11 (81%) Frame = -3 Query: 108 IWLEKTHHIPV 118 +W+++ H+P+ Sbjct: 1217 VWVKRYRHVPL 1185 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PGSA_ECOLI P0ABF8 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase (2.7.8.5) (Phosphatidylglycerophosphate synthase) (PGP synthase) (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.61, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = -3 Query: 21 VLVFYLPVTWSPFAAALIF 39 VLV++ ++ F ALIF Sbjct: 2855 VLVYH*GISLLGFGGALIF 2799 Score = 16.5 bits (31), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 91 VTLPAATMIAREII 104 V PAAT+ EII Sbjct: 239 VIPPAATLAVTEII 198 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHEA_ECOLI P0A9J8 P-protein (Chorismate mutase) (CM) (5.4.99.5) (Prephenate dehydratase) (PDT) (4.2.1.51) (386 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +2 Query: 152 DYAVVPIENTSSGAIND 168 +Y PI+ SG +ND Sbjct: 320 NYLSKPIQLPLSGLVND 370 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHEP_ECOLI P24207 Phenylalanine-specific permease (458 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNA_ECOLI P0AFJ1 Protein phnA (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.0, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -3 Query: 21 YICPECA 27 +IC CA Sbjct: 2060 FICARCA 2040 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNB_ECOLI P16681 Protein phnB (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +2 Query: 136 WMINVVK 142 WM+NV K Sbjct: 1709 WMVNVFK 1729 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNC_ECOLI P16677 Phosphonates import ATP-binding protein phnC (3.6.3.28) (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 1/22 (4%) Frame = +3 Query: 98 VNRLSVLENVLIGALGSTP-FW 118 V RL L N+L + S P FW Sbjct: 4929 VQRLICLSNIL-KLMKSAPQFW 4991 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHND_ECOLI P16682 Phosphonates-binding periplasmic protein (Precursor) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 14/25 (56%) Frame = +3 Query: 46 LKPQWTPFLQDMEKKLGVKVNAFFA 70 +KP+ + F +K LG K F+A Sbjct: 3276 IKPRVSGFFVI*KK*LGYKALFFYA 3350 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 18/57 (31%), Positives = 25/57 (43%) Frame = +3 Query: 168 NNISASDFKRTVNAGHETNALAVANKQVDVATNNTENLDKLKTSAPEKLKELKVIWK 224 N + S KR + + +T + A K VAT NTE+ K EL+ WK Sbjct: 5481 NKLCYSARKRNITSTFKT*TRSSA-K*TYVATENTEHF---------KCSELR--WK 5615 Score = 16.2 bits (30), Expect = 9.3, Method: Compositional matrix adjust. Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 4/43 (9%) Frame = +2 Query: 199 TNNTENLDK---LKTSAPEKLKEL-KVIWKSPLIPGDPIVWRK 237 +NN +N DK L+ A L ++I ++P IVW++ Sbjct: 1139 SNNAQNTDKIGRLEVQAARDDSALPRLIVRAPY----AIVWQR 1255 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNE_ECOLI P16683 Putative phosphonates transport system permease protein phnE (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNF_ECOLI P16684 Probable transcriptional regulator phnF (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.30, Method: Composition-based stats. Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 9/33 (27%) Frame = +1 Query: 10 YPTRY-------QEIAAKLEQEL--RQHYRCGD 33 YP R+ Q A LE E ++H+ CGD Sbjct: 2395 YPLRFK*H*GCLQSSLAMLEIEAHNKEHFLCGD 2493 Score = 19.6 bits (39), Expect = 0.65, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 1/22 (4%) Frame = +1 Query: 196 CQRLEIPNM-SPLLCVRTLNHR 216 C + I M SPL+CV+ L R Sbjct: 3469 CVFISITAMASPLICVQMLATR 3534 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNG_ECOLI P16685 Protein phnG (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNH_ECOLI P16686 Protein phnH (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNI_ECOLI P16687 Protein phnI (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNJ_ECOLI P16688 Protein phnJ (281 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNK_ECOLI P16678 Phosphonates transport ATP-binding protein phnK (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 13/30 (43%) Frame = +1 Query: 99 QVSAGGNIGERLMATGARHYGDIRATAQKW 128 + + G + ERLM + + A KW Sbjct: 268 KFTEAGRLNERLMPLHKELFIEANPIAVKW 357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNL_ECOLI P16679 Phosphonates transport ATP-binding protein phnL (226 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNM_ECOLI P16689 Protein phnM (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -2 Query: 234 HAHVAESHQ 242 H+H+A +HQ Sbjct: 6507 HSHIAITHQ 6481 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNN_ECOLI P16690 ATP-binding protein phnN (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 12/20 (60%) Frame = +1 Query: 5 LIWLMGPSGSGKDSLLAELR 24 ++ +MG GK SLL +R Sbjct: 6535 VVTIMGHVDHGKTSLLDCIR 6594 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNO_ECOLI P16691 Protein phnO (2.3.1.-) (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHNP_ECOLI P16692 Protein phnP (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.21, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 10/28 (35%) Frame = +1 Query: 84 GLFPLRWGVGDPIPVYGPPDEQGCDDLF 111 G+ P WG P G DDL Sbjct: 6910 GILPEEWGGDSPFVHVSAKKGTGIDDLL 6993 Score = 16.2 bits (30), Expect = 8.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = +1 Query: 67 GSFQQFLLTHYHMD 80 S + ++T+YH D Sbjct: 823 SSKRYIMVTNYHSD 864 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOB_ECOLI P0AFJ5 Phosphate regulon transcriptional regulatory protein phoB (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 164 HFFMTHPERV 173 HF + PERV Sbjct: 6088 HFHLLLPERV 6059 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOE_ECOLI P02932 Outer membrane pore protein E (Precursor) (351 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.82 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.82, Method: Compositional matrix adjust. Identities = 13/42 (30%), Positives = 22/42 (52%) Frame = +1 Query: 113 GRNLGALYDVEAWTDMFPEFGGDSSAQTDNFMTKRASGLATY 154 G ++GA + A + +F S+ + NFMT+ + LAT Sbjct: 2596 GADMGASFGAGASSTLF------GSSGSGNFMTRMTAILATL 2703 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 15/27 (55%) Frame = +2 Query: 277 DFGLRPSLGYVLSKGKDIEGIGDEDLV 303 DFG R S+ + SKG + ++ LV Sbjct: 1418 DFGNRSSVQFTDSKGHTLNQQQNDALV 1498 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOH_ECOLI P0A9K1 Protein phoH (Phosphate starvation-inducible protein psiH) (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 15/61 (24%), Positives = 26/61 (42%) Frame = -2 Query: 229 PVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMF 288 PV+ ++ R S + L + A + RGR F L+ A T A++ +F Sbjct: 3999 PVFRSILTRTSISCSCFFLVAVANAISNASKIFSRGRDFS-----LETAS--TTARISLF 3841 Query: 289 L 289 + Sbjct: 3840 I 3838 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOL_ECOLI P0A9K3 PhoH-like protein (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 15/30 (50%) Frame = +1 Query: 9 TLEPADNARLLSLCGPFDDNIKQLERRLGI 38 TLE D R G + +Q+ +R+G+ Sbjct: 2218 TLEKMDKDRFRGNLGGVIEAYEQVAKRIGV 2307 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/9 (88%), Positives = 8/9 (88%) Frame = +2 Query: 5 TREITLEPA 13 TREITLE A Sbjct: 4052 TREITLEAA 4078 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOP_ECOLI P23836 Transcriptional regulatory protein phoP (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 14/26 (53%) Frame = -1 Query: 60 LSLIRRWRSNDVSLPILVLTARESWQ 85 L IRR ++ LPI V + + +Q Sbjct: 3271 LDPIRR*KNPSA*LPINVFSNQNRYQ 3194 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOQ_ECOLI P23837 Sensor protein phoQ (2.7.13.3) (486 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.72, Method: Compositional matrix adjust. Identities = 9/35 (25%), Positives = 17/35 (48%) Frame = -2 Query: 158 SVAVNVYPATSRMPKLTIVVVDTIPVELKSSYMVW 192 +VAV ++P+ SR +T + + + VW Sbjct: 4296 TVAVTIFPSCSRNCSITTARSASRTFCTITCFAVW 4192 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -3 Query: 398 VEISARQTDEHLYIVV 413 +EIS + T YIVV Sbjct: 2558 IEISKKNTSSVTYIVV 2511 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOR_ECOLI P08400 Phosphate regulon sensor protein phoR (2.7.13.3) (431 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHOU_ECOLI P0A9K7 Phosphate transport system protein phoU (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.3, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -1 Query: 210 CEFIFY 215 C+F+FY Sbjct: 5659 CKFVFY 5642 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHP_ECOLI P45548 Phosphotriesterase homology protein (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = -2 Query: 160 SFSTMGLEQLALLQAHGVDLSRVT 183 S S+ + ALL + LSR+T Sbjct: 4374 SISSCPIIPSALLPRSNIMLSRLT 4303 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHR_ECOLI P00914 Deoxyribodipyrimidine photo-lyase (4.1.99.3) (DNA photolyase) (Photoreactivating enzyme) (472 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.51, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 2/35 (5%) Frame = +2 Query: 303 DRVQWQSNPAH--LQAWQEGKTGYPIVDAAMRQLN 335 D V W NPA L A + +VD + +N Sbjct: 4685 DIVLWDDNPAQFVLNAMAPAEVASIVVDEDAKTMN 4789 Score = 17.7 bits (34), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/29 (24%), Positives = 14/29 (48%) Frame = +2 Query: 306 QWQSNPAHLQAWQEGKTGYPIVDAAMRQL 334 +W+ + + + K G P++ RQL Sbjct: 3749 RWKR*SVRTKQYPQSKPGTPLLKI*TRQL 3835 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHSC_ECOLI P77409 Protein phsC homolog (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -3 Query: 116 FLLLACWLGFVL 127 F LACW+ ++ Sbjct: 6827 FAALACWMASIV 6792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHSG_ECOLI P0AC86 Glycogen phosphorylase (2.4.1.1) (815 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 5.9, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = -1 Query: 763 YVDCQDKVDELYEL 776 YVD K LYEL Sbjct: 3052 YVDHHPKASYLYEL 3011 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHSM_ECOLI P00490 Maltodextrin phosphorylase (2.4.1.1) (797 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.16, Method: Compositional matrix adjust. Identities = 11/22 (50%), Positives = 14/22 (63%) Frame = +2 Query: 534 KRLHEYKRQHLNLLHILALYKE 555 KRL E + + N+L LAL KE Sbjct: 5072 KRLQELRDRAQNVLTTLALKKE 5137 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PHYDA_ECOLI Q46806 D-phenylhydantoinase (3.5.2.-) (Hydantoin-utilizing enzyme hyuA) (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.79 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.79, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 96 FGPNGCRL 103 F P+GCRL Sbjct: 2182 FSPDGCRL 2205 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PIFA_ECOLI P96329 Phage T7 exclusion protein (741 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PIFC_ECOLI P10030 Transcriptional repressor pifC (Protein C) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.28, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 13/17 (76%) Frame = +1 Query: 25 NTSVNALAERFLDDGLK 41 +TSV+ L ++F D GLK Sbjct: 5422 STSVDRLIQQFADAGLK 5472 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/43 (18%), Positives = 19/43 (44%) Frame = +1 Query: 254 WYTTPRLHLLITGQDFVVPYGWEALSELLGLFTLYARHPEALT 296 + +LH I + + +GW + + L + L + + L+ Sbjct: 1966 FLKNDQLHDPIVSEAYCKAFGWASEAHLAQMKKLSYQVNDVLS 2094 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PIL1_ECOLI P04737 Pilin (F-pilin) (Precursor) (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.22 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.22, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = -1 Query: 31 LARAVIPAAVLMMFFPQL 48 L+R +IP + F PQL Sbjct: 4717 LSRIIIPQNDINTFSPQL 4664 Score = 20.0 bits (40), Expect = 0.24, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 16/27 (59%) Frame = -1 Query: 26 LNMLRLARAVIPAAVLMMFFPQLAMAA 52 L MLR +AV+P + +PQL + + Sbjct: 1849 LPMLRCLKAVVP---FVWGYPQLQVGS 1778 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PIMT_ECOLI P0A7A5 Protein-L-isoaspartate O-methyltransferase (2.1.1.77) (Protein-beta-aspartate methyltransferase) (PIMT) (Protein L-isoaspartyl methyltransferase) (L-isoaspartyl protein carboxyl methyltransferase) (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -3 Query: 146 IVTAAPPEIPTALMT 160 ++ A PP LMT Sbjct: 6389 LIVAIPPSFIIVLMT 6345 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PINE_ECOLI P03014 DNA-invertase from lambdoid prophage e14 (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.16, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 12/19 (63%) Frame = +1 Query: 123 TKAGLETARAQGRIGGRRP 141 +KA E ARA GR R+P Sbjct: 6172 SKADREEARAVGRKSKRKP 6228 Score = 16.5 bits (31), Expect = 4.2, Method: Compositional matrix adjust. Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%) Frame = +1 Query: 27 CELIFEDKIS--GTKSER--PGLKKLLRTLSAGDTLVVWKLDRLG 67 C+ + E K + G +ER P K+L + A V W RLG Sbjct: 247 CQRVAEGKFTEAGRLNERLMPLHKELF--IEANPIAVKWACKRLG 375 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PINH_ECOLI P76611 Putative DNA-invertase from prophage CP4-44 (Fragment) (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.24 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.24, Method: Composition-based stats. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -1 Query: 44 CERGINFRALAQSIFAQQWG 63 C + FR + IFA Q+G Sbjct: 1654 CRQF*PFRDTTRLIFASQYG 1595 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PINQ_ECOLI P77170 Putative DNA-invertase from lambdoid prophage Qin (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 13/25 (52%) Frame = -2 Query: 5 FAYCRISTLDQTTENQRREIESAGF 29 F Y +I T T Q + I +AGF Sbjct: 186 FLY-KIKTCRIITAQQNKIITNAGF 115 Score = 16.2 bits (30), Expect = 5.6, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = -1 Query: 32 KPQQIIEEHI 41 KP+ ++ EH+ Sbjct: 6757 KPRYLLPEHL 6728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PINR_ECOLI P0ADI0 Putative DNA-invertase from lambdoid prophage Rac (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.8, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = -1 Query: 32 KPQQIIEEHI 41 KP+ ++ EH+ Sbjct: 6757 KPRYLLPEHL 6728 Score = 15.8 bits (29), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +1 Query: 2 SRIFAYCRIS 11 SRIF + RIS Sbjct: 4996 SRIFFFRRIS 5025 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PIOO_ECOLI P03825 Protein pioO (Protein pinO) (139 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 12 KETGHP 17 K+TGHP Sbjct: 3790 KQTGHP 3807 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PITA_ECOLI P0AFJ7 Low-affinity inorganic phosphate transporter 1 (499 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 16/32 (50%) Frame = -3 Query: 407 TTIGEKIGKKGMTYAQGMSAQMTAAVSIGLAS 438 T + + IGK+ ++ S +IGLAS Sbjct: 425 TRVSDVIGKRKVSAVINPSRLQAHLTAIGLAS 330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PITB_ECOLI P43676 Probable low-affinity inorganic phosphate transporter 2 (499 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = +2 Query: 396 IGTMIGWRRVAMTIGE 411 + + GW MTI E Sbjct: 4853 VSQLSGWELNVMTINE 4900 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PLDB_ECOLI P07000 Lysophospholipase L2 (3.1.1.5) (Lecithinase B) (340 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 52 HHDRVVVICPGR 63 HH VV+ CP R Sbjct: 2 HHAPVVIYCPKR 37 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 5/54 (9%) Frame = +1 Query: 248 GEQVLAGAGDDATPTLLLQAEEERVVD---NRMHDRFCEL--RTAAGHPVEGGR 296 G+ + +GDDAT +Q + ++ N EL R A G E GR Sbjct: 127 GDNFILLSGDDATGFDFIQKGGQGIISVTANVAAGGMTELCQRVAEGKFTEAGR 288 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -1 Query: 48 FRAQHHDRVVV 58 FRA +H+R V+ Sbjct: 34 FRAINHNRCVM 2 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +3 Query: 213 HSRQRYRRNL 222 H RQR R+N+ Sbjct: 3927 H*RQRPRKNM 3956 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PLSB_ECOLI P0A7A7 Glycerol-3-phosphate acyltransferase (GPAT) (2.3.1.15) (807 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PLSC_ECOLI P26647 1-acyl-sn-glycerol-3-phosphate acyltransferase (1-AGP acyltransferase) (1-AGPAT) (2.3.1.51) (Lysophosphatidic acid acyltransferase) (LPAAT) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 23 IYCLFS 28 +YCLFS Sbjct: 6163 VYCLFS 6146 Score = 15.8 bits (29), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +3 Query: 99 LWIPFFGQLY 108 +WI +F QLY Sbjct: 2643 VWI*WFRQLY 2672 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PLSX_ECOLI P27247 Fatty acid/phospholipid synthesis protein plsX (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PMBA_ECOLI P0AFK0 Protein pmbA (Protein tldE) (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 13/40 (32%), Positives = 18/40 (45%) Frame = +1 Query: 217 QTPEWVGADCARRTLSRLSPRKLSTMKAPVIFANEVATGL 256 Q P +G A L RLS K S ++ + + ATG Sbjct: 52 QIPNIIGLKEATGNLERLSMIKPSVGDNFILLSGDDATGF 171 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PMRD_ECOLI P37590 Signal transduction protein pmrD (BasR post-transcriptional activator) (Polymyxin resistance protein pmrD) (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.4, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 2 EWLVKKSC 9 EW++ K+C Sbjct: 2403 EWILTKAC 2380 Score = 15.0 bits (27), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 68 SASSYSPD 75 SA S++PD Sbjct: 2068 SAFSFAPD 2045 Score = 14.2 bits (25), Expect = 7.1, Method: Composition-based stats. Identities = 5/18 (27%), Positives = 9/18 (50%) Frame = -2 Query: 9 CCNKQDNRHVLMLCDAGG 26 CC + + + +AGG Sbjct: 1311 CCRSRLVTVIPIFANAGG 1258 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PNCA_ECOLI P21369 Pyrazinamidase/nicotinamidase (PZAase) (3.5.1.-) (3.5.1.19) (Nicotine deamidase) (NAMase) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 17/26 (65%), Gaps = 1/26 (3%) Frame = +3 Query: 88 VQNSEGAQLHP-LLHQKAIAAVFHKG 112 V N++ A + P L+HQ+ ++ H+G Sbjct: 579 VINAK*AVMKPILMHQR*KGSMHHRG 656 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +1 Query: 86 HCVQNSEGAQLHPLLHQKAIA 106 HCV S A PL+ + +A Sbjct: 3466 HCVFISITAMASPLICVQMLA 3528 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PNCB_ECOLI P18133 Nicotinate phosphoribosyltransferase (NAPRTase) (2.4.2.11) (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 1/31 (3%) Frame = -2 Query: 135 RYRSPQADVAQALDTLE-SKLVDFSALTAGL 164 R S Q A L+ + SKL F+ +AGL Sbjct: 5247 RSSSVQTPHAANLNAISRSKLAKFNKSSAGL 5155 Score = 16.5 bits (31), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -2 Query: 82 ADYLNWLRE 90 DY NWL E Sbjct: 6273 VDYSNWLIE 6247 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PNP_ECOLI P05055 Polyribonucleotide nucleotidyltransferase (2.7.7.8) (Polynucleotide phosphorylase) (PNPase) (711 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.71, Method: Compositional matrix adjust. Identities = 13/48 (27%), Positives = 25/48 (52%) Frame = +2 Query: 393 VGSPKRREIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSM 440 + SP +++I + KRG+LAV + Y +S++ S + S+ Sbjct: 6158 INSPSQKQI----VKKRGLLAVKAKESQALYNRVSISQLL*STATLSL 6289 Score = 19.2 bits (38), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 14/26 (53%) Frame = +1 Query: 189 VESEAQLLSEDQMLGAVVFGHEQQQV 214 + ++ LL +DQ VFG +Q+ Sbjct: 3013 IHRDSLLLDDDQRTICYVFGRGMEQL 3090 Score = 18.5 bits (36), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +3 Query: 491 MDFKVAGSRD 500 + KVAGSRD Sbjct: 5391 CNHKVAGSRD 5420 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PNTA_ECOLI P07001 NAD(P) transhydrogenase subunit alpha (1.6.1.2) (Nicotinamide nucleotide transhydrogenase subunit alpha) (Pyridine nucleotide transhydrogenase subunit alpha) (510 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.6, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 12/21 (57%) Frame = -3 Query: 320 PTQSSQLYGTNLVNLLKLLCK 340 P +S+L T LLKL CK Sbjct: 6290 PMITSRL--TTATGLLKLCCK 6234 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PNTB_ECOLI P0AB67 NAD(P) transhydrogenase subunit beta (1.6.1.2) (Nicotinamide nucleotide transhydrogenase subunit beta) (Pyridine nucleotide transhydrogenase subunit beta) (462 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = +1 Query: 12 VAAILFIFSLAGLSKHETS 30 V ++ F+ AGL K ETS Sbjct: 5431 VDRLIQQFADAGLKKSETS 5487 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PNUC_ECOLI P0AFK2 Nicotinamide riboside transporter pnuC (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 22/41 (53%) Frame = -3 Query: 47 NYFFGLINVTLFGIIFFQIQLYASLLLQVFFFAANIYGWYA 87 N+FF I + IFF + AS L +F ++ + G+++ Sbjct: 5846 NFFFSTIGLLFVSAIFFAL---ASFALSLFACSSALAGFFS 5733 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -2 Query: 102 RWLPLPKALSWLAVCV 117 R + L KALS A C Sbjct: 1227 RTISLGKALSSRAACT 1180 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 9/66 (13%) Frame = +1 Query: 108 KALSWLAVC-VVSIGLMTVFINPVFAFLTRVAVMIMQALGLQ--------VVMPELQPDA 158 KA W + + + ++ +N V + L A +I+ L+ + E PD Sbjct: 2017 KAFGWASEAHLAQMKKLSYQVNDVLSKLFDDAGLILVDFKLEFGLFENKITLGDEFSPDG 2196 Query: 159 FPFWDS 164 WD Sbjct: 2197 CRLWDK 2214 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -1 Query: 45 ISNYFFGLI 53 +SNY FG+I Sbjct: 4363 LSNYSFGVI 4337 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 11/15 (73%) Frame = +2 Query: 180 KYVENWLLWVIINVI 194 +++E W++INV+ Sbjct: 3011 QFIEIACFWMMINVL 3055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTA_ECOLI P69874 Spermidine/putrescine import ATP-binding protein potA (3.6.3.31) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.80, Method: Compositional matrix adjust. Identities = 12/38 (31%), Positives = 16/38 (42%) Frame = -3 Query: 69 VDSGRIMLDNEDITHVPAENRYVNTVFQSYALFPHMTV 106 V S + L ITH +RY Y LF H+ + Sbjct: 5396 VTSVMLFLPATVITHYRQTSRYCGLP*LIYRLFHHLAL 5283 Score = 17.3 bits (33), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 192 ALQRKLGITFVFVT 205 A+ LGI F+F Sbjct: 6111 AISFNLGIIFIFCC 6070 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTB_ECOLI P0AFK4 Spermidine/putrescine transport system permease protein potB (275 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 12/32 (37%) Frame = -2 Query: 87 VRPLLLFL------------LIVPFWTNSLIR 106 +RPLL+ + + VP WTNS R Sbjct: 3444 IRPLLICVPRLLPVLKLSLLIFVPTWTNSPPR 3349 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = -3 Query: 94 LLIVPFWTNSLIR 106 LLI+PF + + IR Sbjct: 1757 LLIIPFRSKA*IR 1719 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTC_ECOLI P0AFK6 Spermidine/putrescine transport system permease protein potC (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.8, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = +1 Query: 233 LATILLVLSLVMVIASQLIARDKTK 257 LAT+ ++SLV+ S R ++ Sbjct: 2692 LATLFFIVSLVLGNMSSKQHRQSSE 2766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTD_ECOLI P0AFK9 Spermidine/putrescine-binding periplasmic protein (SPBP) (Precursor) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = +1 Query: 224 NLGMIWNGSAFVARQAGTPI 243 NLG + VA++ G P+ Sbjct: 2254 NLGGVIEAYEQVAKRIGVPL 2313 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 18/35 (51%) Frame = +1 Query: 192 IEAAYNELKKLMPNVAAFNSDNPANPYMEGEVNLG 226 IEA K++ +A F+ + AN + GE+ L Sbjct: 2269 IEAYEQVAKRIGVPLAPFSDNVSANKKI*GEIALA 2373 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 3/6 (50%), Positives = 6/6 (100%) Frame = -1 Query: 127 IPYIWG 132 +P++WG Sbjct: 1819 VPFVWG 1802 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTE_ECOLI P0AAF1 Putrescine-ornithine antiporter (Putrescine transport protein) (439 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 16/36 (44%) Frame = +1 Query: 222 NVPIAVLGGTLGAAVIYIVSTNVIAGIVPNMELANS 257 NVP + GG + I I PN ELAN+ Sbjct: 5593 NVPSS--GGKSKSVQIEIRRKRTYIN-TPNAELANT 5691 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%) Frame = -1 Query: 78 YAFGKSGNFMANYTYGV 94 Y F + ++NY++GV Sbjct: 4390 YVFTRQHILLSNYSFGV 4340 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 15/25 (60%) Frame = -2 Query: 394 VGAMYSFYALYSSGEEAMLYGSIVT 418 V + YS+YAL S + +L +I+ Sbjct: 5379 VPSCYSYYAL--SPNQQILRAAIIN 5311 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTF_ECOLI P31133 Putrescine-binding periplasmic protein (Precursor) (370 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = +1 Query: 146 KVKAVLGENAPVDSWDL 162 K + + G+N + +W+L Sbjct: 634 KAQCITGDNPAITAWNL 684 Score = 16.5 bits (31), Expect = 8.5, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = -3 Query: 29 QKTLHIYNWS 38 Q +H+++WS Sbjct: 3968 QFLVHVFSWS 3939 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTG_ECOLI P31134 Putrescine transport ATP-binding protein potG (377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +3 Query: 234 PEEIYEHPTTRY 245 P+ +YEHPT + Sbjct: 1212 PDLLYEHPTPSF 1247 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 17/33 (51%) Frame = +3 Query: 196 LERVGVTCVMVTHDQEEAMTMAGRIAIMNRGKF 228 LER+ T T E + + RIA+ NR K+ Sbjct: 3603 LERLLFTAEDYTDYLGERINLTLRIAMQNRRKW 3701 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTH_ECOLI P31135 Putrescine transport system permease protein potH (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = -2 Query: 217 AALDLGARPLKT 228 A DLG RPL Sbjct: 3612 GAQDLGMRPLSC 3577 Score = 16.9 bits (32), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 13/24 (54%) Frame = -3 Query: 131 TRNILLLLVILPSWTSFLIRVYAW 154 +RN+L P FL+ V++W Sbjct: 4010 SRNLLFFDRY*PG-LQFLVHVFSW 3942 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POTI_ECOLI P0AFL1 Putrescine transport system permease protein potI (281 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +3 Query: 48 STRWYGE 54 TRWYG Sbjct: 6363 ETRWYGN 6383 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= POXB_ECOLI P07003 Pyruvate dehydrogenase [cytochrome] (1.2.2.2) (Pyruvate oxidase) (POX) (Pyruvate dehydrogenase [Ubiquinone]) (Alpha-peptide) (572 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPA_ECOLI P07102 Periplasmic appA protein (Phosphoanhydride phosphohydrolase) (3.1.3.2) (pH 2.5 acid phosphatase) (AP) (4-phytase) (3.1.3.26) (Precursor) (432 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = -3 Query: 340 WTLPGQPDNTP 350 WTL G P P Sbjct: 788 WTLSGNPLIVP 756 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPB_ECOLI P00634 Alkaline phosphatase (APase) (3.1.3.1) (Precursor) (471 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPDA_ECOLI P33554 Prepilin peptidase-dependent protein A (Precursor) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 109 PSLAFFGLRNTA 120 PS+A LRN++ Sbjct: 1715 PSIADVSLRNSS 1680 Score = 15.4 bits (28), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +3 Query: 42 TASQARDYL 50 T +ARDY Sbjct: 180 TKRRARDYF 206 Score = 15.0 bits (27), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -2 Query: 94 VFVPRW 99 +FVP W Sbjct: 3384 IFVPTW 3367 Score = 15.0 bits (27), Expect = 9.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +1 Query: 123 GHIRFKN 129 GH FKN Sbjct: 3799 GHPTFKN 3819 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPDB_ECOLI P08371 Prepilin peptidase-dependent protein B (Precursor) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPDC_ECOLI P08372 Prepilin peptidase-dependent protein C (Precursor) (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.0, Method: Compositional matrix adjust. Identities = 16/68 (23%), Positives = 23/68 (33%), Gaps = 19/68 (27%) Frame = +2 Query: 55 WQQTQLRAISPPANWQVNRMQTSQAGCVSIS--------------VTLV-----SPGGRE 95 WQQ+ I NW + + + V ++ V L+ SP Sbjct: 6377 WQQSTRLLIRKQRNWLLKKWVIKLSCVVKMNSKKH**VIAIWEWRVNLLYAPPSSPSWVM 6556 Query: 96 GEMTRLHC 103 M RLHC Sbjct: 6557 LIMVRLHC 6580 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPDD_ECOLI P36647 Prepilin peptidase-dependent protein D (Precursor) (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPIA_ECOLI P0AFL3 Peptidyl-prolyl cis-trans isomerase A (PPIase A) (Rotamase A) (5.2.1.8) (Cyclophilin A) (Precursor) (190 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPIB_ECOLI P23869 Peptidyl-prolyl cis-trans isomerase B (PPIase B) (Rotamase B) (5.2.1.8) (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPIC_ECOLI P0A9L5 Peptidyl-prolyl cis-trans isomerase C (PPIase C) (Rotamase C) (5.2.1.8) (Parvulin) (Par10) (93 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.9, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +2 Query: 7 ALHILVKEEKLALDLLEQ 24 ALH+ +L LDL+ Q Sbjct: 2609 ALHLERVPPQLCLDLVVQ 2662 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPID_ECOLI P0ADY1 Peptidyl-prolyl cis-trans isomerase D (PPIase D) (Rotamase D) (5.2.1.8) (623 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 9.6, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = +2 Query: 374 KVKHEKALDAYYALQQKVS 392 KVK ++ L +L QKVS Sbjct: 5768 KVKVQRKLTRKKSLTQKVS 5824 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPK_ECOLI P0A7B1 Polyphosphate kinase (2.7.4.1) (Polyphosphoric acid kinase) (ATP-polyphosphate phosphotransferase) (688 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPNK_ECOLI P0A7B3 Probable inorganic polyphosphate/ATP-NAD kinase (Poly(P)/ATP NAD kinase) (2.7.1.23) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +2 Query: 135 QQDCQKRISTAINEVVLH 152 ++ CQ TAI+ + H Sbjct: 4904 KEKCQAETRTAIDMFIEH 4957 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPPA_ECOLI Q46836 Leader peptidase pppA (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.5, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +2 Query: 80 PLFSWLMLKGRCRDCQAKISK 100 P+ ++LKG + A ISK Sbjct: 743 PIQPLVLLKGSRIESTADISK 805 Score = 16.2 bits (30), Expect = 7.9, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 16/35 (45%) Frame = -2 Query: 31 VIWRYPIMLRQQMAEFHGEMSSAQSKISLALPRSH 65 + ++ P+M G +SS S LPRS+ Sbjct: 4428 ISYKIPLMRSPGRMFSRGSISSCPIIPSALLPRSN 4324 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPSA_ECOLI P23538 Phosphoenolpyruvate synthase (PEP synthase) (2.7.9.2) (Pyruvate, water dikinase) (792 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.41, Method: Compositional matrix adjust. Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 3/26 (11%) Frame = -1 Query: 43 VSVPNGFATTAD---AFNQFLDQSGV 65 V V + A TAD AFNQF+ S + Sbjct: 1162 VCVLSIIAITADFI*AFNQFIQHSTI 1085 Score = 20.0 bits (40), Expect = 1.7, Method: Compositional matrix adjust. Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 3/40 (7%) Frame = +1 Query: 301 ELAKQAVQIEKHYGRPMD---IEWAKDGHTGKLFIVQARP 337 E AKQ Q+EK + + E AK+ + K+ +++P Sbjct: 5707 EQAKQVEQVEKKPAKAEEQAKSESAKEANAKKIADTKSKP 5826 Score = 18.9 bits (37), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = +1 Query: 82 TQLAKAGAQIRQWIIDTPF 100 T+L++ G +W D+PF Sbjct: 6892 TELSQHGILPEEWGGDSPF 6948 Score = 18.9 bits (37), Expect = 4.5, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = -2 Query: 488 MNVGNPDRAFDFACLPNEGVG 508 NV +PD D +C P G Sbjct: 6660 FNVISPDMLCDPSCFPCRNFG 6598 Score = 18.1 bits (35), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -3 Query: 175 YRVHQGYDHRGVALS 189 + VH G+DH + S Sbjct: 5117 WSVHSGHDHAALEAS 5073 Score = 17.7 bits (34), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -1 Query: 502 LPNEGVGLA 510 LPN+GVG + Sbjct: 1252 LPNDGVGCS 1226 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPTA_ECOLI P31992 Tautomerase pptA (5.3.2.-) (77 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PPX_ECOLI P0AFL6 Exopolyphosphatase (ExopolyPase) (3.6.1.11) (Metaphosphatase) (513 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +3 Query: 200 TLTWQFR 206 +L+WQFR Sbjct: 2241 SLSWQFR 2261 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PQIA_ECOLI P0AFL9 Paraquat-inducible protein A (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.028 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.028, Method: Compositional matrix adjust. Identities = 12/34 (35%), Positives = 21/34 (61%), Gaps = 2/34 (5%) Frame = -3 Query: 242 STKGYVRRRNSLQWTLA--LLVTSIMLYLPANIL 273 S +RR ++ + A +VTS+ML+LPA ++ Sbjct: 5459 SANCCMRRSTEVEISAASNFMVTSVMLFLPATVI 5358 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +2 Query: 292 GVILLWSEGSYPVAAV 307 G+IL G+Y +A V Sbjct: 653 GIILPLQHGTYDIAQV 700 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = -2 Query: 181 CVLQLRAFQC 190 C LRAF C Sbjct: 6357 CFNDLRAFNC 6328 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PQIB_ECOLI P43671 Paraquat-inducible protein B (546 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PQQL_ECOLI P31828 Probable zinc protease pqqL (3.4.24.-) (931 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.1, Method: Compositional matrix adjust. Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 9/48 (18%) Frame = +1 Query: 501 LTVDADPQA--------EISSKETLAENLTSLTLSNGARVILA-KSAG 539 L ++A+P A + + ETL +TSLTL N RV A KSAG Sbjct: 322 LFIEANPIAVKWACKRLGLITAETLRLPMTSLTLVNQKRVEDALKSAG 465 Score = 20.0 bits (40), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 877 LANTIVNSLIQYDDPA 892 +ANT+ + Q DPA Sbjct: 5269 IANTLFGKIFQRTDPA 5222 Score = 18.1 bits (35), Expect = 8.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 9/9 (100%) Frame = -1 Query: 204 VATVTPAQL 212 ++TVTP+QL Sbjct: 3511 ISTVTPSQL 3485 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRC_ECOLI P23865 Tail-specific protease (3.4.21.102) (Protease Re) (PRC protein) (C-terminal-processing peptidase) (Precursor) (682 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.32, Method: Compositional matrix adjust. Identities = 11/20 (55%), Positives = 13/20 (65%) Frame = -2 Query: 364 GFYVGLTDDVKVQLQKLEKQ 383 GF V LTD+ VQL +KQ Sbjct: 2022 GFTVSLTDNGIVQLIIFQKQ 1963 Score = 21.9 bits (45), Expect = 0.36, Method: Compositional matrix adjust. Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 6/51 (11%) Frame = +3 Query: 345 VKMSVKTVGKEKVGVLDIPG------FYVGLTDDVKVQLQKLEKQNVSSVI 389 + VK +G + VGV IPG Y+ D V V + VS+V+ Sbjct: 3396 ISAPVKALGHKLVGVEFIPGRQSTLRIYIDNCDGVTVDMCADVSYQVSAVL 3548 Score = 18.9 bits (37), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -3 Query: 34 VLKEETQHATVSERVTSRFT 53 +L + TVS +TSR T Sbjct: 6326 ILFASSATVTVSPMITSRLT 6267 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRIA_ECOLI P17888 Primosomal protein N' (3.6.1.-) (ATP-dependent helicase priA) (Replication factor Y) (732 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.47, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 14/18 (77%) Frame = +1 Query: 523 QQLAEVHRGGARILIGTQ 540 Q+LAE++RG A+ + T+ Sbjct: 1609 QKLAELYRGKAKTVYTTE 1662 Score = 20.8 bits (42), Expect = 0.88, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 11/24 (45%), Gaps = 1/24 (4%) Frame = -2 Query: 440 GWIAEC-PRCDHYYTLHQAQHHLR 462 G+I P C YY L Q LR Sbjct: 5397 GYICHAVPSCYSYYALSPNQQILR 5326 Score = 18.1 bits (35), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +1 Query: 311 FKNLGVIVIDEEHDS 325 FKNL DE+ DS Sbjct: 3811 FKNLDEAT*DEQRDS 3855 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRIB_ECOLI P07013 Primosomal replication protein n (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.75 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.75, Method: Composition-based stats. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 80 CHKAKNGLSKMV 91 CH KN LSK + Sbjct: 305 CHYIKNYLSKPI 340 Score = 17.3 bits (33), Expect = 1.2, Method: Composition-based stats. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = +1 Query: 94 AEQIELID 101 AEQIEL D Sbjct: 6016 AEQIELTD 6039 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRIC_ECOLI P23862 Primosomal replication protein N'' (175 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.21, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +1 Query: 38 LFQTRATTLQACLDE 52 F+ R TTLQ+C E Sbjct: 1057 YFEYRDTTLQSCYVE 1101 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +1 Query: 130 RARLARVTDLV 140 RAR A+ TD+V Sbjct: 6721 RARGAQATDIV 6753 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/33 (21%), Positives = 16/33 (48%) Frame = +2 Query: 42 RATTLQACLDEAGDNLAALRHAVEQQQLPQVAW 74 R + AC+ G + A+ + + +++ V W Sbjct: 4601 RIDPIGACVGMRGARVQAVSNELGGERIDIVLW 4699 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRIM_ECOLI P0ABS5 DNA primase (2.7.7.-) (581 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/37 (27%), Positives = 18/37 (48%) Frame = +2 Query: 141 QYLEKRGLSHEVIARFAIGFAPPGWDNVLKRFGGNPE 177 Q++E + FA F+ GW +++ R NP+ Sbjct: 3011 QFIEIACFWMMINVLFA-TFSDAGWSSLVARRAHNPK 3118 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRMA_ECOLI P0A8T1 Ribosomal protein L11 methyltransferase (L11 Mtase) (2.1.1.-) (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.6, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 11/21 (52%) Frame = +3 Query: 140 GTHPTTSLCLQWLDSLDLTGK 160 G H T L+W S+ LTG Sbjct: 2943 GRHAT----LRW*CSIGLTGS 2993 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROA_ECOLI P07004 Gamma-glutamyl phosphate reductase (GPR) (1.2.1.41) (Glutamate-5-semialdehyde dehydrogenase) (Glutamyl-gamma-semialdehyde dehydrogenase) (GSA dehydrogenase) (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.33, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 17/27 (62%) Frame = +1 Query: 34 ELEAQSEIILNANAQDVADARANGLSE 60 E +A+SE ANA+ +AD ++ + E Sbjct: 5755 EEQAKSESAKEANAKKIADTKSKPIVE 5835 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +2 Query: 353 QRFVNEVDSSAVYVNA 368 QR+ +V Y+NA Sbjct: 575 QRYKRQVSGDEAYLNA 622 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROB_ECOLI P0A7B5 Glutamate 5-kinase (2.7.2.11) (Gamma-glutamyl kinase) (GK) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +1 Query: 299 GIKSVTGNFSRGEVIR 314 G+K TGN R +I+ Sbjct: 70 GLKEATGNLERLSMIK 117 Score = 16.5 bits (31), Expect = 8.8, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 12/18 (66%) Frame = +1 Query: 6 TLVVKLGTSVLTGGSRRL 23 T VVKL ++ GGS RL Sbjct: 2926 TEVVKLVDTLP*GGSARL 2979 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROP_ECOLI P0C0L7 Proline/betaine transporter (Proline porter II) (PPII) (500 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROQ_ECOLI P45577 ProP effector (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.63, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 170 KAPREEQHTPVSDI 183 +APR H P+ I Sbjct: 4644 RAPRIPTHAPIGSI 4603 Score = 16.9 bits (32), Expect = 4.4, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 9/21 (42%) Frame = -2 Query: 2 ENQPKLNSSKEVIAFLAERFP 22 + PKL F AER P Sbjct: 3303 QKTPKLGV*YNWTLFAAERIP 3241 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 159 QKPVEKAP 166 Q PV+KAP Sbjct: 262 QLPVDKAP 239 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROV_ECOLI P14175 Glycine betaine/L-proline transport ATP-binding protein proV (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROW_ECOLI P14176 Glycine betaine/L-proline transport system permease protein proW (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROX_ECOLI P0AFM2 Glycine betaine-binding periplasmic protein (Precursor) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 14/29 (48%) Frame = +3 Query: 59 VNKPSEVDYNVGYTSLASGDATFTAVNWT 87 V +P YN+ +S FTA ++T Sbjct: 3552 VEEPITCPYNLEVSSPGLERLLFTAEDYT 3638 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +3 Query: 51 ALEKLGYTV 59 LEK G+T+ Sbjct: 447 CLEKCGFTI 473 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PROY_ECOLI P0AAE2 Proline-specific permease proY (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 2/35 (5%) Frame = -3 Query: 86 LAGYITGWTYCFEILIVAIA--DVTAFGIYMGVWF 118 LAG+ + + CF ++A + +A G+ M V F Sbjct: 5750 LAGFFSTCSTCFACSVLAFSVFASSALGVLM*VRF 5646 Score = 17.3 bits (33), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -2 Query: 422 HPDTRISLYVGF 433 +PDT +L +GF Sbjct: 2307 NPDTFSNLLIGF 2272 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRP1_ECOLI P55798 Serine/threonine-protein phosphatase 1 (3.1.3.16) (218 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 11/18 (61%) Frame = +3 Query: 134 RTGKHVIAHADYPDDVYE 151 R +HV A YPD +YE Sbjct: 1179 RYKRHVTI-ALYPDLLYE 1229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRP2_ECOLI P55799 Serine/threonine-protein phosphatase 2 (3.1.3.16) (218 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -1 Query: 111 QEAIDLLLKFHHLPH 125 Q +D FH LPH Sbjct: 262 QLPVDKAPSFHLLPH 218 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRPB_ECOLI P77541 Methylisocitrate lyase (4.1.3.30) (2-methylisocitrate lyase) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRPC_ECOLI P31660 2-methylcitrate synthase (2.3.3.5) (Methylcitrate synthase) (Citrate synthase 2) (389 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.52, Method: Compositional matrix adjust. Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 1/76 (1%) Frame = +1 Query: 267 EVVIGFGHPVYTIADPRHQVIKRVAKQLSQEGGSLKMYNIADRLETVMWESKKMFPN-LD 325 E+ G VYT DP + V++ + +G ++ + + K M N + Sbjct: 1621 ELYRGKAKTVYTTEDPNYLVLEFRNDTSAMDGQRIQAF-----------DRKGMINNKFN 1767 Query: 326 WFSAVSYNMMGVPTEM 341 F G+PT+M Sbjct: 1768 HFIMNRLEAAGIPTQM 1815 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRPD_ECOLI P77243 2-methylcitrate dehydratase (4.2.1.79) (483 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.0, Method: Compositional matrix adjust. Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 3/54 (5%) Frame = +1 Query: 329 IRIIDKKGPLNNPADRDHCIQYMV---AIPLLFGRLTAADYEDNVAQDKRIDAL 379 I+ D+KG +NN +H I + IP RL + DN A KR++ + Sbjct: 1723 IQAFDRKGMINNKF--NHFIMNRLEAAGIPTQMERLLS----DNEALVKRLEMI 1866 Score = 17.3 bits (33), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/23 (21%), Positives = 14/23 (60%) Frame = +1 Query: 174 LVKVASTAVVAEMLGLTREEILN 196 +++ + + + LG+T ++LN Sbjct: 1879 VIRNRTAGSLVKRLGITENQVLN 1947 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRPE_ECOLI P77495 Propionate--CoA ligase (6.2.1.17) (Propionyl-CoA synthetase) (628 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.28, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 14/34 (41%) Frame = +1 Query: 236 CILYTSGTTGKPKGVQRDVGGYAVALATSMDTIF 269 CI T G+ G+ + +G Y V M T Sbjct: 6586 CIRSTKVAAGEAGGITQHIGAYHVETENGMVTFL 6687 Score = 21.6 bits (44), Expect = 0.53, Method: Compositional matrix adjust. Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 8/77 (10%) Frame = +2 Query: 94 NAVASMLRSLGVQRGDRVLVYMPMIAEAHITLLA--CARIGAIHSVVFGGFASHSV---- 147 N +A +++SLG+Q+ ++++ I + +L + I S + + Sbjct: 1001 NQLALVVKSLGLQQQEKMVTSNIEIQHYNRAMLNKLIEGLDKIRSNSNNAQNTDKIGRLE 1180 Query: 148 --AARIDDAKPVLIVSA 162 AAR D A P LIV A Sbjct: 1181 VQAARDDSALPRLIVRA 1231 Score = 20.8 bits (42), Expect = 0.74, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 13/19 (68%) Frame = -3 Query: 267 TIFGGKAGSVFFCASDIGW 285 ++FG GS F CAS+I + Sbjct: 5561 SLFGT*PGSCFKCASNISF 5505 Score = 20.8 bits (42), Expect = 0.81, Method: Compositional matrix adjust. Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 3/68 (4%) Frame = +2 Query: 518 PGVAEVAV-VGVKDALKGQVAVAF--VIPKESDSLEDRDVAHSQEKAIMALVDSQIGNFG 574 P +A++ + V +D +G +AV + + ++ D+L +D K Q+G+FG Sbjct: 1262 PALAKIGMTVTKRDRQQGNIAVTYSPINSRDWDALGAQD-----PKLKSGSYQLQVGDFG 1426 Query: 575 RPAHVWFV 582 + V F Sbjct: 1427 NRSSVQFT 1450 Score = 19.6 bits (39), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = -2 Query: 352 DLSSLEVLYLAGEPLD 367 LSSL V+ L+ +PL Sbjct: 4908 SLSSLIVITLSSQPLS 4861 Score = 18.5 bits (36), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +2 Query: 556 HSQEKAIMALVDSQIGNF 573 H QE + +D + G+F Sbjct: 3953 HEQEIEVRVNIDRKTGDF 4006 Score = 18.1 bits (35), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 11/14 (78%) Frame = -1 Query: 576 PAHVWFVSQLPKTR 589 P+H + +++ P+TR Sbjct: 3325 PSHFFQITKNPETR 3284 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRPR_ECOLI P77743 Propionate catabolism operon regulatory protein (528 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PRTL_ECOLI P02338 Protamine-like protein (29 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSD_ECOLI P0A8K1 Phosphatidylserine decarboxylase proenzyme (4.1.1.65) (Phosphatidylserine decarboxylase alpha chain) (Phosphatidylserine decarboxylase beta chain) (322 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 13/24 (54%) Frame = -2 Query: 36 LVIDLFVKYYKVDMKEAQKPDTAS 59 ++LF++ Y V + PDT S Sbjct: 2361 FTLNLFIR*YVVRKGR*RNPDTFS 2290 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSIA1_ECOLI P18148 Protein psiA (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +3 Query: 159 PETVGSWHARW 169 P VG W +W Sbjct: 4011 PSVVGKWSVKW 4043 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 9/23 (39%), Gaps = 1/23 (4%) Frame = +3 Query: 174 AEHDLETLFWQWGER-FPSLAGM 195 EH + WGE S GM Sbjct: 4635 GEHVFKLCLTSWGENVLISFCGM 4703 Score = 16.2 bits (30), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -1 Query: 24 ETEKRRHQGNTLAEYPY 40 +TE RRH YP+ Sbjct: 2647 QTELRRHPLQMKRPYPH 2597 Score = 15.8 bits (29), Expect = 8.6, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +1 Query: 42 GAFFRC 47 G+F+RC Sbjct: 4747 GSFYRC 4764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSIB1_ECOLI P10031 Protein psiB (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.76, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +2 Query: 37 MRELDAPDNWTMNGEYGS 54 M ++ N NG+YG+ Sbjct: 5534 MNQVKCQINLRCNGKYGA 5587 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -1 Query: 73 FHLALCSPGDVSQVW 87 F+ C GD+ Q W Sbjct: 6136 FYFPGCDYGDLLQPW 6092 Score = 17.3 bits (33), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -1 Query: 66 FTPAHERFHLALCSP 80 F+P R L CSP Sbjct: 4678 FSPQLVRHSLNTCSP 4634 Score = 16.2 bits (30), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 10/25 (40%) Frame = +1 Query: 67 TPAHERFHLALCSPGDVSQVWVLVL 91 TP H F + + VLV+ Sbjct: 6691 TPGHAAFTSMRARGAQATDIVVLVV 6765 Score = 15.0 bits (27), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -2 Query: 74 HLALCSPGD 82 HLA SPG Sbjct: 3552 HLARHSPGS 3526 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSIE_ECOLI P0A7C8 Protein psiE (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSIF_ECOLI P0AFM4 Phosphate starvation-inducible protein psiF (Precursor) (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSPA_ECOLI P0AFM6 Phage shock protein A (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSPB_ECOLI P0AFM9 Phage shock protein B (74 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.0, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +3 Query: 23 WLHYSNR 29 WL+Y N+ Sbjct: 495 WLYYKNQ 515 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSPC_ECOLI P0AFN2 Phage shock protein C (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.5, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 5 NLNKKL 10 N+NKKL Sbjct: 3951 NMNKKL 3968 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSPD_ECOLI P0AFV8 Phage shock protein D (73 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSPE_ECOLI P23857 Phage shock protein E (Precursor) (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +2 Query: 3 KKGLLAL 9 K+GLLA+ Sbjct: 6191 KRGLLAV 6211 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSPF_ECOLI P37344 Psp operon transcriptional activator (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.46, Method: Compositional matrix adjust. Identities = 24/111 (21%), Positives = 42/111 (37%), Gaps = 4/111 (3%) Frame = +1 Query: 133 GGSQPLQVNVR----LVCATNADLPAMVNEGTFRADLLDRLAFDVVQLPPLRERESDIML 188 G S+ +Q+ +R + NA+L T +A +++ V + P E ++ Sbjct: 5611 GKSKSVQIEIRRKRTYINTPNAELANTEKAKTEQAKQVEQ----VEKKPAKAEEQAKSES 5778 Query: 189 MAEYFAIQMCREIKLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYR 239 E A ++ P+ ++ R ELK VER V R Sbjct: 5779 AKEANAKKIADTKSKPIVEKKKLTTQQQSDKTRREAEAAELKRSVEREVRR 5931 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +3 Query: 137 PLQVNVRLVC 146 PLQ +RLVC Sbjct: 960 PLQAVIRLVC 989 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 22/41 (53%), Gaps = 2/41 (4%) Frame = +2 Query: 33 LIIGERG--TGKELIASRLHYLSSRWQGPFISLNCAALNEN 71 L +G+ G + + S+ H L+ + +++ AALN+N Sbjct: 1406 LQVGDFGNRSSVQFTDSKGHTLNQQQNDALVAVLRAALNQN 1528 Score = 17.3 bits (33), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 13/19 (68%) Frame = -3 Query: 254 PFKRRPPEDAIAVSETTSL 272 P + PP+ +++ + TTS+ Sbjct: 2981 PNRALPPQGSVSTNFTTSV 2925 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSS_ECOLI P23830 CDP-diacylglycerol--serine O-phosphatidyltransferase (2.7.8.8) (Phosphatidylserine synthase) (451 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%), Gaps = 1/22 (4%) Frame = -2 Query: 259 LMPCAEQKLTICTPY-FNLPAI 279 L PC+ + ++ TP+ NL AI Sbjct: 5265 LTPCSARSSSVQTPHAANLNAI 5200 Score = 17.3 bits (33), Expect = 6.6, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 22/47 (46%) Frame = +2 Query: 125 GVPINTREALGVLHFKGFIIDDSVLYSGASLNDVYLHQHDKYRYDRY 171 G IN R+ G I +YS A ++ YL++ ++R+ Y Sbjct: 3374 GTKIN-RDNFSTGKSLGTQISRGRIYSRAPIHTAYLYR*LRWRHR*Y 3511 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSTA_ECOLI P07654 Phosphate transport system permease protein pstA (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSTB_ECOLI P0AAH0 Phosphate import ATP-binding protein pstB (3.6.3.27) (Phosphate-transporting ATPase) (ABC phosphate transporter) (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = -1 Query: 46 GCGKSTLLRTFNKMFELYPEQ 66 GC LL+ ++ L PE+ Sbjct: 6124 GCDYGDLLQPWHHFHLLLPER 6062 Score = 17.3 bits (33), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -2 Query: 120 KLSRADMDERVQWALTKA 137 +L M + +W LTKA Sbjct: 2436 RLQTTSMLFKTEWILTKA 2383 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +1 Query: 50 STLLRTFNK 58 STL ++FNK Sbjct: 6229 STLQQSFNK 6255 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSTC_ECOLI P0AGH8 Phosphate transport system permease protein pstC (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = +2 Query: 212 WEVIWRIVLP 221 W+V+ +V+P Sbjct: 4022 WKVVSEVVMP 4051 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PSTS_ECOLI P0AG82 Phosphate-binding protein pstS (PBP) (Precursor) (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 11/13 (84%) Frame = -3 Query: 17 SMSAFSVFAEASL 29 S+ AFSVFA ++L Sbjct: 5708 SVLAFSVFASSAL 5670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PT1P_ECOLI P37177 Phosphoenolpyruvate-protein phosphotransferase ptsP (2.7.3.9) (Phosphotransferase system, enzyme I) (Enzyme I-Ntr) (748 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PT1_ECOLI P08839 Phosphoenolpyruvate-protein phosphotransferase (2.7.3.9) (Phosphotransferase system, enzyme I) (575 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTA_ECOLI P0A9M8 Phosphate acetyltransferase (2.3.1.8) (Phosphotransacetylase) (714 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 9.5, Method: Compositional matrix adjust. Identities = 18/58 (31%), Positives = 26/58 (44%) Frame = +2 Query: 406 RIVLPEGDEPRTVKAAAICAERGIATCVLLGNPAEINRVAASQGVELGAGIEIVDPEV 463 RI +PE DE AAI A + N I+ + A G+ GA ++ V E+ Sbjct: 4499 RIEVPEIDEELIEIKAAIRDPASRAKIAVKTNDKRIDPIGACVGMR-GARVQAVSNEL 4669 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFAH_ECOLI P69811 Multiphosphoryl transfer protein (MTP) (Phosphotransferase FPr protein) (Pseudo-HPr) (Phosphocarrier protein HPr) (Protein H) (Fructose-specific phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system fructose-specific EIIA component) (376 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFA_ECOLI P32155 Fructose-like phosphotransferase enzyme IIA component (2.7.1.-) (PTS system fructose-like EIIA component) (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.4, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = -3 Query: 98 ICLGVPQSGEEDQVK 112 IC+G+P + +K Sbjct: 1814 ICVGIPAASSRFIMK 1770 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFB1_ECOLI P69808 Fructose-like phosphotransferase enzyme IIB component 1 (2.7.1.69) (PTS system fructose-like EIIB component 1) (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.7, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +1 Query: 8 LCACPMGLAHTFM 20 LC P+G T M Sbjct: 2482 LCGDPIGRIGTTM 2520 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFB2_ECOLI P69816 Fructose-like phosphotransferase enzyme IIB component 2 (2.7.1.69) (PTS system fructose-like EIIB component 2) (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.5, Method: Composition-based stats. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 99 EAHLAQ 104 EAHLAQ Sbjct: 2038 EAHLAQ 2055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFB3_ECOLI P32676 Fructose-like phosphotransferase enzyme IIB component 3 (2.7.1.69) (PTS system fructose-like EIIB component 3) (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.4, Method: Composition-based stats. Identities = 8/30 (26%), Positives = 15/30 (50%) Frame = +1 Query: 44 GTENRLADEDIRRADVALLITDIELAGAER 73 G +++ +IRR + + ELA E+ Sbjct: 5608 GGKSKSVQIEIRRKRTYINTPNAELANTEK 5697 Score = 15.8 bits (29), Expect = 3.8, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -2 Query: 30 LEKWGVS 36 + KWG+S Sbjct: 6954 VNKWGIS 6934 Score = 15.4 bits (28), Expect = 5.2, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -3 Query: 68 LAGAERFEH 76 LAG RF H Sbjct: 2792 LAG*LRFSH 2766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFBC_ECOLI P20966 PTS system fructose-specific EIIBC component (EIIBC-Fru) (Fructose-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system fructose-specific EIIB component) (EIII-Fru) (Fructose permease IIC component) (PTS system fructose-specific EIIC component) (563 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFC1_ECOLI P77579 Fructose-like permease IIC component 1 (PTS system fructose-like EIIC component 1) (415 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.9, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 11/13 (84%) Frame = +2 Query: 208 VMLAMYYVITPFG 220 ++ +++YV+TP G Sbjct: 2465 IIKSIFYVVTP*G 2503 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFC2_ECOLI P32672 Fructose-like permease IIC component 2 (PTS system fructose-like EIIC component 2) (359 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/31 (25%), Positives = 17/31 (54%) Frame = +1 Query: 59 DIGVAGLTLMVPFLAAYIGYSIAERSALAPC 89 D+GVAG + + + +G+ +++L C Sbjct: 6496 DMGVAGESALRAPVVTIMGHVDHGKTSLLDC 6588 Score = 16.9 bits (32), Expect = 5.9, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 15/29 (51%) Frame = +2 Query: 223 ICIPPLGMGLATLIGRKNFSAEERETGKA 251 +C+ + + T I R NFS TGK+ Sbjct: 3344 LCLGGEFVHVGTKINRDNFS-----TGKS 3415 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFLB_ECOLI P32154 Fructose-like PTS system EIIBC component (Fructose-like phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system fructose-like EIIB component) (Fructose-like permease IIC component) (PTS system fructose-like EIIC component) (483 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +1 Query: 403 ITANTLAGGIT 413 +TAN AGG+T Sbjct: 208 VTANVAAGGMT 240 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFX1_ECOLI P77439 Multiphosphoryl transfer protein 1 (MTP 1) (Phosphoenolpyruvate-protein phosphotransferase) (2.7.3.9) (Phosphotransferase system enzyme I) (Phosphocarrier protein HPr) (Protein H) (Fructose-like phosphotransferase enzyme IIA component 2) (2.7.1.-) (PTS system fructose-like EIIA component 2) (831 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTFX2_ECOLI P32670 Multiphosphoryl transfer protein 2 (MTP 2) (Phosphoenolpyruvate-protein phosphotransferase) (2.7.3.9) (Phosphotransferase system enzyme I) (Enzyme I-Ani) (Phosphocarrier protein HPr) (Protein H) (Fructose-like phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system fructose-like EIIA component) (833 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.52, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 15/26 (57%) Frame = -2 Query: 367 VWLTQQARTADGIRIEIAANIAHSVE 392 VW+ +++T D I I I+ SVE Sbjct: 4197 VWVVMRSKTTDLIWSSI*VGISDSVE 4120 Score = 19.2 bits (38), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +2 Query: 770 VRWGDDEAQFII 781 V W D+ AQF++ Sbjct: 4691 VLWDDNPAQFVL 4726 Score = 18.9 bits (37), Expect = 4.6, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -1 Query: 750 HSKSEHIEQSTISVA 764 H SEH++ S SVA Sbjct: 5611 HRSSEHLKCSVFSVA 5567 Score = 18.5 bits (36), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -1 Query: 28 NTFSSQIEWHNLRT 41 NTFS Q+ H+L T Sbjct: 4684 NTFSPQLVRHSLNT 4643 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTGA_ECOLI P69783 Glucose-specific phosphotransferase enzyme IIA component (2.7.1.-) (PTS system glucose-specific EIIA component) (EIIA-Glc) (EIII-Glc) (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +1 Query: 102 EGFKRIAEEGQRV 114 E KR+AEE +++ Sbjct: 5941 EDAKRVAEEARKM 5979 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 12/22 (54%) Frame = +1 Query: 40 VVFAEKIVGDGIAIKPTGNKMV 61 VV + I+G+ + + NKM Sbjct: 6265 VVNRDVIIGETVTVAELANKMA 6330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTGCB_ECOLI P69786 PTS system glucose-specific EIICB component (EIICB-Glc) (EII-Glc) (Glucose permease IIC component) (PTS system glucose-specific EIIC component) (Glucose-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system glucose-specific EIIB component) (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.93, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 16/36 (44%) Frame = -2 Query: 233 FHGDIPRYMAGDPTAGKLSGGFLFKMYGLPAAAIAI 268 F + PR+ G+ FLF + PAA AI Sbjct: 6213 FTANSPRFFTICF*LGEFIAFFLFGSFTSPAATTAI 6106 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 1/35 (2%) Frame = -3 Query: 285 ISAALTSFLT-GITEPIEFSFMFVAPILYIIHAIL 318 ISA L T PIE S + + YI+ IL Sbjct: 2606 ISAPLPCCNTISAISPIEISKKNTSSVTYIVVPIL 2502 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTHA_ECOLI P05706 Glucitol/sorbitol-specific phosphotransferase enzyme IIA component (2.7.1.-) (PTS system glucitol/sorbitol-specific EIIA component) (EIIA-Gut) (EIII-Gut) (123 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.56, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -2 Query: 28 FREGAPADLEEYCFI 42 F+ G P L YC + Sbjct: 3816 FKSGVPGLLCGYCLV 3772 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTHB_ECOLI P56580 Glucitol/sorbitol-specific phosphotransferase enzyme IIB component (2.7.1.69) (PTS system glucitol/sorbitol-specific EIIB component) (EII-Gut) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTHC_ECOLI P56579 Glucitol/sorbitol permease IIC component (PTS system glucitol/sorbitol-specific EIIC component) (EIIC-Gut) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 73 CIGTFVFCNPMT 84 C G F F P+T Sbjct: 282 CFGKFTFSYPLT 247 Score = 16.9 bits (32), Expect(2) = 2.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 108 HSMNGLFPHIN 118 HS+N PH N Sbjct: 4657 HSLNTCSPHPN 4625 Score = 16.2 bits (30), Expect(2) = 2.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = -3 Query: 59 RCAGNPVSRYLLLPCIGTFV 78 CA + V YLL +F+ Sbjct: 4835 HCAQSLVQNYLLQLLCSSFL 4776 Score = 15.8 bits (29), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -2 Query: 77 FVFCNPMTL 85 F+FC P L Sbjct: 6084 FIFCCPSVL 6058 Score = 15.8 bits (29), Expect = 7.0, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 14/35 (40%) Frame = +3 Query: 47 FIGQHRIERFAQRCAGNPVSRYLLLPCIGTFVFCN 81 IG H + + NPV+ + T V CN Sbjct: 1350 VIGMH*VRKILN*---NPVAISCKWVILATVVACN 1445 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTHP_ECOLI P0AA04 Phosphocarrier protein HPr (2.7.11.-) (Histidine-containing protein) (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.57 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.57, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +2 Query: 13 GLHTRPAAQFVKEA 26 G +RP QF++ A Sbjct: 2987 GFKSRPRYQFIEIA 3028 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTH_ECOLI P0A7D1 Peptidyl-tRNA hydrolase (PTH) (3.1.1.29) (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.78, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 10/12 (83%) Frame = +3 Query: 123 KLGNNPNFHRLR 134 ++ +NP +HR++ Sbjct: 42 EISSNPQYHRVK 77 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTIBC_ECOLI P24241 PTS system arbutin-, cellobiose-, and salicin-specific EIIBC component (EIIBC-Asc) (EII-Asc) (Arbutin-, cellobiose-, and salicin-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system arbutin-, cellobiose-, and salicin-specific EIIB component) (Arbutin, cellobiose, and salicin permease IIC component) (PTS system arbutin-, cellobiose-, and salicin-specific EIIC component) (485 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +3 Query: 381 VAIRLKRPLIASLISGFICGAV 402 V IRL +PL+ S I + Sbjct: 3126 VQIRLTQPLLEKFFSNTIFREI 3191 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTKA_ECOLI P69828 Galactitol-specific phosphotransferase enzyme IIA component (2.7.1.-) (PTS system galactitol-specific EIIA component) (EIIA-Gat) (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +3 Query: 106 PQQQLKLLRCLFGKLQQ 122 P+Q+ KLL + KL + Sbjct: 4191 PKQRNKLLYKKYAKLNE 4241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTKB_ECOLI P37188 Galactitol-specific phosphotransferase enzyme IIB component (2.7.1.69) (EIIB-Gat) (PTS system galactitol-specific EIIB component) (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.6, Method: Composition-based stats. Identities = 8/25 (32%), Positives = 12/25 (48%) Frame = +2 Query: 67 IPLVHGMPFISGIGIEALQNKILTI 91 +PL HG I+ + + K L I Sbjct: 662 LPLQHGTYDIAQVSQQGAVGKQLDI 736 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTKC_ECOLI P69831 Galactitol permease IIC component (PTS system galactitol-specific EIIC component) (EIIC-Gat) (451 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -1 Query: 309 ASLIFIPLTILIAVCVP 325 +SLIF+P+ + VP Sbjct: 1864 SSLIFLPMLRCLKAVVP 1814 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTM3C_ECOLI P00550 PTS system mannitol-specific EIICBA component (EIICBA-Mtl) (EII-Mtl) (Mannitol permease IIC component) (PTS system mannitol-specific EIIC component) (Mannitol-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system mannitol-specific EIIB component) (Mannitol-specific phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system mannitol-specific EIIA component) (637 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTMA_ECOLI P69824 Mannitol-specific cryptic phosphotransferase enzyme IIA component (2.7.1.-) (PTS system mannitol-specific EIIA component) (EIIA-Mtl) (EIII-Mtl) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.10 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.10, Method: Compositional matrix adjust. Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 3/37 (8%) Frame = -3 Query: 62 GVAMPHARPECGALKTGMSLTLLEQGV---YFPGNDE 95 V + + R A K +SL+LL + YFP N + Sbjct: 581 NVVLSNKRLTTSATKRLLSLSLLIFVI*PLYFPSNQD 471 Score = 18.1 bits (35), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 12/26 (46%) Frame = +2 Query: 71 ECGALKTGMSLTLLEQGVYFPGNDEP 96 EC + + LE+ Y P ++ P Sbjct: 4973 ECATVLVEAEFSSLEELAYVPESELP 5050 Score = 16.2 bits (30), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 63 VAMPHARPE 71 VA PH RP+ Sbjct: 6790 VA*PHHRPQ 6764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTMCB_ECOLI P69826 PTS system mannitol-specific cryptic EIICB component (EIICB-Mtl) (EII-Mtl) (Mannitol permease IIC component) (PTS system mannitol-specific EIIC component) (Mannitol-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system mannitol-specific EIIB component) (462 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +1 Query: 179 SVINEPAKVLFLNN 192 V+N P LFL N Sbjct: 1936 QVLNHPLFELFLKN 1977 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTNAB_ECOLI P69797 PTS system mannose-specific EIIAB component (EIIAB-Man) (Mannose-specific phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system mannose-specific EIIA component) (EIII-Man) (Mannose-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system mannose-specific EIIB component) (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +2 Query: 297 RGIELEVRKVSTDPKL 312 RGI E+R + P+L Sbjct: 4409 RGILYEIRPEARGPQL 4456 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTNC_ECOLI P69801 Mannose permease IIC component (PTS system mannose-specific EIIC component) (EIIC-Man) (EII-P-Man) (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -1 Query: 49 GIIIGGTLEMIALGW 63 G +IG + AL W Sbjct: 3574 GQVIGSSTSSTALTW 3530 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTND_ECOLI P69805 Mannose permease IID component (PTS system mannose-specific EIID component) (EIID-Man) (EII-M-Man) (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +1 Query: 28 SNLFQGS 34 SNLFQG+ Sbjct: 3439 SNLFQGA 3459 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -3 Query: 208 NKWTHVNIPLVVSRI 222 +WT PL+V R+ Sbjct: 794 QQWTLSGNPLIVPRV 750 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTOCB_ECOLI P19642 PTS system maltose- and glucose-specific EIICB component (Maltose and glucose permease IIC component) (PTS system maltose- and glucose-specific EIIC component) (Maltose- and glucose-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system maltose- and glucose-specific EIIB component) (530 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +1 Query: 252 AGGTQEVCGQTVSGALT 268 AGG E+C + G T Sbjct: 226 AGGMTELCQRVAEGKFT 276 Score = 18.9 bits (37), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 13/18 (72%) Frame = +1 Query: 475 LRLSVKDMSLVNVQALKD 492 LRL + ++LVN + ++D Sbjct: 394 LRLPMTSLTLVNQKRVED 447 Score = 17.7 bits (34), Expect = 6.6, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = +2 Query: 169 RLPDALAFFGGT 180 RLP ALA G T Sbjct: 1253 RLPPALAKIGMT 1288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTPB1_ECOLI P42909 N-acetylgalactosamine-specific phosphotransferase enzyme IIB component 1 (2.7.1.69) (PTS system N-acetylgalactosamine-specific EIIB component 1) (EIIB-Aga) (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.39, Method: Compositional matrix adjust. Identities = 6/25 (24%), Positives = 15/25 (60%) Frame = -3 Query: 70 INVIGKAAPHQKIFLICRTPQTVRK 94 + ++ +PH+K L+C + ++ K Sbjct: 2513 VPILPMGSPHKKCSLLCASISSIAK 2439 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTPB2_ECOLI P42904 N-acetylgalactosamine-specific phosphotransferase enzyme IIB component 2 (2.7.1.69) (PTS system N-acetylgalactosamine-specific EIIB component 2) (EIIB-Aga') (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.022 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.022, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 22/41 (53%) Frame = +2 Query: 51 VLAEGIAVRFWTLQKVIDNIHRAADRQKILLVCKTPADFLT 91 VL + I+ FW L+ ++ + HR + +L K+P L+ Sbjct: 6731 VLRQQISW-FWLLRPMMGSCHRRSRPSNMLKQRKSPLSLLS 6850 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTPC1_ECOLI P42910 N-acetylgalactosamine permease IIC component 1 (PTS system N-acetylgalactosamine-specific EIIC component 1) (EIIC-Aga) (267 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.31, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 14/25 (56%) Frame = +2 Query: 144 TMLIVASAYAVIAFLCTYLAQGAMQ 168 MLI+ + +IAF+ L QG + Sbjct: 6551 VMLIMVRLHCLIAFVRPKLRQGKQE 6625 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = -2 Query: 24 WLEALFLFRPIIVC 37 W+ AL RP+++C Sbjct: 3465 WIGALE*IRPLLIC 3424 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTPC2_ECOLI P42905 Putative N-acetylgalactosamine permease IIC component 2 (PTS system N-acetylgalactosamine-specific EIIC component 2) (EIIC-Aga') (133 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTPD_ECOLI P42911 N-acetylgalactosamine permease IID component (PTS system N-acetylgalactosamine-specific EIID component) (EIID-Aga) (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.15 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.15, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 13/28 (46%) Frame = +2 Query: 105 IGDAIFWFTLLPIMAGICSSFASQGNLL 132 + I WF LL M G C + N+L Sbjct: 6734 LRQQISWFWLLRPMMGSCHRRSRPSNML 6817 Score = 20.8 bits (42), Expect = 0.28, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = +3 Query: 144 IFFLRVGWTHVGYSVGVK 161 IFF WT+ Y + + Sbjct: 2538 IFFTDFDWTYCAYRIATR 2591 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -2 Query: 120 GICSSFASQGNLL 132 G C+ ASQ LL Sbjct: 1380 GSCAPNASQSRLL 1342 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 237 RVKKAHPVL 245 RVK+ HP L Sbjct: 6529 RVKQIHPPL 6503 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTPS_ECOLI P65870 Putative 6-pyruvoyl tetrahydrobiopterin synthase (PTP synthase) (PTPS) (4.2.3.12) (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTQA_ECOLI P69791 N,N'-diacetylchitobiose-specific phosphotransferase enzyme IIA component (2.7.1.-) (PTS system N,N'-diacetylchitobiose-specific EIIA component) (EIIA-Chb) (EIII-Chb) (116 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTQB_ECOLI P69795 N,N'-diacetylchitobiose-specific phosphotransferase enzyme IIB component (2.7.1.69) (PTS system N,N'-diacetylchitobiose-specific EIIB component) (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTQC_ECOLI P17334 N,N'-diacetylchitobiose permease IIC component (PTS system N,N'-diacetylchitobiose-specific EIIC component) (EIIC-Chb) (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 12/15 (80%) Frame = +3 Query: 60 FFYSLGIRLDASTIE 74 FFY+LG+ L ST+E Sbjct: 3339 FFYALGVSL--STLE 3377 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTRA_ECOLI P05458 Protease 3 (3.4.24.55) (Protease III) (Pitrilysin) (Protease pi) (Precursor) (962 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTRB_ECOLI P24555 Protease 2 (3.4.21.83) (Protease II) (Oligopeptidase B) (686 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.38, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 17/41 (41%) Frame = -2 Query: 430 PVSLVYHRKHFRKGHNPLLVYGYGSYGASIDADFSFSRLSL 470 P + ++ R NP V+ Y + S F FSR L Sbjct: 6003 PFTFIFCCHFTRFFSNPFRVFFYLTAHFSFYRTFQFSRFCL 5881 Score = 18.9 bits (37), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 10/15 (66%) Frame = +3 Query: 501 KKNTFNDYLDACDAL 515 +++T Y+D CD + Sbjct: 3456 RQSTLRIYIDNCDGV 3500 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTSN_ECOLI P69829 Nitrogen regulatory protein (2.7.1.-) (Enzyme IIA-NTR) (Phosphotransferase enzyme IIA component) (PTS system EIIA component) (163 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.66, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = +2 Query: 35 ISELAAKQLSLPPQVVFEAI 54 + E + + SLP + +FEA+ Sbjct: 3860 VVEAVSNEKSLPREKIFEAL 3919 Score = 16.5 bits (31), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 100 DNQPVDLLFAL 110 DN+P D L L Sbjct: 5150 DNKPADDLLNL 5182 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTSO_ECOLI P0A9N0 Phosphocarrier protein NPr (2.7.11.-) (Nitrogen-related HPr) (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.44, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = -2 Query: 1 MTVKQTVEITNKLGMHARP 19 +T +Q ITN HA+P Sbjct: 156 ITAQQNKIITNAGFYHAKP 100 Score = 15.8 bits (29), Expect = 2.9, Method: Composition-based stats. Identities = 8/29 (27%), Positives = 13/29 (44%) Frame = -2 Query: 57 SAKGRQIEVEATGPQEEEALAAVIALFNS 85 S GR+ + GP+ ++ I L S Sbjct: 4485 SISGRERLINNWGPRASGRISYKIPLMRS 4399 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTTBC_ECOLI P36672 PTS system trehalose-specific EIIBC component (EIIBC-Tre) (EII-Tre) (Trehalose-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system trehalose-specific EIIB component) (Trehalose permease IIC component) (PTS system trehalose-specific EIIC component) (473 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = -2 Query: 406 SGLAGLLCG 414 SG+ GLLCG Sbjct: 3810 SGVPGLLCG 3784 Score = 16.9 bits (32), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 4/9 (44%) Frame = -1 Query: 103 WHEQLISHF 111 WH HF Sbjct: 4051 WHNHFTDHF 4025 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTV3B_ECOLI P08722 PTS system beta-glucoside-specific EIIBCA component (EIIBCA-Bgl) (EII-Bgl) (Beta-glucoside-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system beta-glucoside-specific EIIB component) (Beta-glucoside permease IIC component) (PTS system beta-glucoside-specific EIIC component) (Beta-glucoside-specific phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system beta-glucoside-specific EIIA component) (625 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTW3C_ECOLI P09323 PTS system N-acetylglucosamine-specific EIICBA component (EIICBA-Nag) (EII-Nag) (N-acetylglucosamine permease IIC component) (PTS system N-acetylglucosamine-specific EIIC component) (N-acetylglucosamine-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system N-acetylglucosamine-specific EIIB component) (N-acetylglucosamine-specific phosphotransferase enzyme IIA component) (2.7.1.-) (PTS system N-acetylglucosamine-specific EIIA component) (648 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = -2 Query: 351 YFVVFSLVIRMFNL 364 YF++FS + ++F L Sbjct: 2805 YFLIFSWLTQIFPL 2764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTXB_ECOLI P69789 Phosphotransferase enzyme IIB component glvB (2.7.1.69) (PTS system EIIB component) (161 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 16/33 (48%) Frame = -2 Query: 91 NCATRLRIALHDMSQTLDDEVFKKLGAHGVFRS 123 +CA I+ ++ +L +K+ VFRS Sbjct: 4083 SCAASSVISRVGITTSLTTFQRRKVSKSPVFRS 3985 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTXC_ECOLI P31452 Putative permease IIC component glvC (PTS system EIIC component) (368 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.0, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 11/24 (45%) Frame = -2 Query: 161 KLPVFLGIFQGTSYVVIIAFLVMI 184 K PVF I TS FLV + Sbjct: 4005 KSPVFRSILTRTSISCSCFFLVAV 3934 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PTYBC_ECOLI P77272 PTS system N-acetylmuramic acid-specific EIIBC component (EIIBC-MurNAc) (N-acetylmuramic acid-specific phosphotransferase enzyme IIB component) (2.7.1.69) (PTS system N-acetylmuramic acid-specific EIIB component) (N-acetylmuramic acid permease IIC component) (PTS system N-acetylmuramic acid-specific EIIC component) (474 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -3 Query: 290 FMHLNSNPFGCAVLA 304 F S F C+VLA Sbjct: 5741 FFSTCSTCFACSVLA 5697 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR1_ECOLI P0AG16 Amidophosphoribosyltransferase (ATase) (2.4.2.14) (Glutamine phosphoribosylpyrophosphate amidotransferase) (GPATase) (505 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 10/44 (22%), Positives = 20/44 (45%) Frame = +3 Query: 249 VSNPCLFEYVYFARPDSFIDKISVYSARVNMGTKLGEKIAREWE 292 VS+P L ++ A D R+N+ ++ + R+W+ Sbjct: 3588 VSSPGLERLLFTAE-----DYTDYLGERINLTLRIAMQNRRKWQ 3704 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR2_ECOLI P15640 Phosphoribosylamine--glycine ligase (6.3.4.13) (GARS) (Glycinamide ribonucleotide synthetase) (Phosphoribosylglycinamide synthetase) (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.28, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 15/23 (65%) Frame = +3 Query: 181 GHRIVIEEFLDGEEASFIVMVDG 203 GH++V EF+ G +++ + +D Sbjct: 3420 GHKLVGVEFIPGRQSTLRIYIDN 3488 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = +2 Query: 355 PLEEVAGGKVFHAGTKLADDE 375 P GG+ H GTK+ D Sbjct: 3335 PFFLCLGGEFVHVGTKINRDN 3397 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR3_ECOLI P08179 Phosphoribosylglycinamide formyltransferase (2.1.2.2) (5'-phosphoribosylglycinamide transformylase) (GAR transformylase) (GART) (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.88 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.88, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 132 HGTSVHFVTDE 142 HG S HFV + Sbjct: 5881 HGGSCHFVVES 5849 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR4_ECOLI P15254 Phosphoribosylformylglycinamidine synthase (FGAM synthase) (FGAMS) (6.3.5.3) (Formylglycinamide ribotide amidotransferase) (FGARAT) (Formylglycinamide ribotide synthetase) (1295 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.28, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 1/36 (2%) Frame = +1 Query: 1261 PERVFRTVS-NSWHPENWGEDGPWMRIFRNARKQLG 1295 PER+ +S + PE WG D P++ + +A+K G Sbjct: 6877 PERLRTELSQHGILPEEWGGDSPFVHV--SAKKGTG 6978 Score = 19.6 bits (39), Expect = 3.9, Method: Composition-based stats. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = -1 Query: 1220 LRYVDNFGKVTETY 1233 LRY D + +TE Y Sbjct: 2872 LRYKDKY*SITEEY 2831 Score = 19.2 bits (38), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = +1 Query: 703 VALLDFAASARLAVGEA 719 +LLD S ++A GEA Sbjct: 6571 TSLLDCIRSTKVAAGEA 6621 Score = 19.2 bits (38), Expect = 5.4, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 17/33 (51%) Frame = +1 Query: 204 IELYMFAQANSEHCRHKIFNADWVIDGEQQPKS 236 IEL + S+H R D ++G+++ +S Sbjct: 6025 IELTDYHVTTSQHARAAEDENDAKVEGDRRSRS 6123 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR5_ECOLI P08178 Phosphoribosylformylglycinamidine cyclo-ligase (6.3.3.1) (AIRS) (Phosphoribosyl-aminoimidazole synthetase) (AIR synthase) (345 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR6_ECOLI P0AG18 Phosphoribosylaminoimidazole carboxylase catalytic subunit (4.1.1.21) (AIR carboxylase) (AIRC) (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.52, Method: Composition-based stats. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = +1 Query: 5 NNPARVAIVMGSKSDWATMQF 25 +NP ++ K+DWA F Sbjct: 3277 SNPEFRGFLLFEKNDWAIRPF 3339 Score = 16.9 bits (32), Expect = 3.0, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +1 Query: 108 VQMPRGIPV 116 VQ+P +P+ Sbjct: 2989 VQIPSSVPI 3015 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR7_ECOLI P0A7D7 Phosphoribosylaminoimidazole-succinocarboxamide synthase (6.3.2.6) (SAICAR synthetase) (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 377 e-108 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 377 bits (967), Expect = e-108, Method: Compositional matrix adjust. Identities = 175/236 (74%), Positives = 209/236 (88%) Frame = +1 Query: 1 MQKQAELYRGKAKTVYSTENPDLLVLEFRNDTSAGDGARIEQFDRKGMVNNKFNYFIMSK 60 MQK AELYRGKAKTVY+TE+P+ LVLEFRNDTSA DG RI+ FDRKGM+NNKFN+FIM++ Sbjct: 1606 MQKLAELYRGKAKTVYTTEDPNYLVLEFRNDTSAMDGQRIQAFDRKGMINNKFNHFIMNR 1785 Query: 61 LAEAGIPTQMERLLSDTECLVKKLDMVPVECVVRNRAAGSLVKRLGIEEGIELNPPLFDL 120 L AGIPTQMERLLSD E LVK+L+M+P+ECV+RNR AGSLVKRLGI E LN PLF+L Sbjct: 1786 LEAAGIPTQMERLLSDNEALVKRLEMIPIECVIRNRTAGSLVKRLGITENQVLNHPLFEL 1965 Query: 121 FLKNDAMHDPMVNESYCETFGWVSKENLARMKELTYKANDVLKKLFDDAGLILVDFKLEF 180 FLKND +HDP+V+E+YC+ FGW S+ +LA+MK+L+Y+ NDVL KLFDDAGLILVDFKLEF Sbjct: 1966 FLKNDQLHDPIVSEAYCKAFGWASEAHLAQMKKLSYQVNDVLSKLFDDAGLILVDFKLEF 2145 Query: 181 GLYKGEVVLGDEFSPDGSRLWDKETLEKMDKDRFRQSLGGLIEAYEAVARRLGVQL 236 GL++ ++ LGDEFSPDG RLWDK+TLEKMDKDRFR +LGG+IEAYE VA+R+GV L Sbjct: 2146 GLFENKITLGDEFSPDGCRLWDKKTLEKMDKDRFRGNLGGVIEAYEQVAKRIGVPL 2313 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 193 FSPDGSRLWD 202 +SP SR WD Sbjct: 1331 YSPINSRDWD 1360 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR8_ECOLI P0AB89 Adenylosuccinate lyase (ASL) (4.3.2.2) (Adenylosuccinase) (ASase) (456 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 383 EVLAEPIQTVMRRY 396 E P+Q +RRY Sbjct: 4379 EAAYPPVQLFLRRY 4338 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUR9_ECOLI P15639 Bifunctional purine biosynthesis protein purH (Phosphoribosylaminoimidazolecarboxamide formyltransferase) (2.1.2.3) (AICAR transformylase) (IMP cyclohydrolase) (3.5.4.10) (Inosinicase) (IMP synthetase) (ATIC) (529 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.16, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 16/29 (55%) Frame = +1 Query: 316 FGGIIAFNRELDAETAQAIISRQFVEVII 344 GG+ N+ +D ETAQ + +VI+ Sbjct: 6367 LGGMATINQVIDQETAQLVAEEMGHKVIL 6453 Score = 20.0 bits (40), Expect = 1.3, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 4/27 (14%) Frame = -1 Query: 66 GRVKTLHPKV----HGGILGRRGQDDA 88 GRVK +HP + H +L R DA Sbjct: 6532 GRVKQIHPPLPYRDHSSVLLRVHFHDA 6452 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PURA_ECOLI P0A7D4 Adenylosuccinate synthetase (6.3.4.4) (IMP--aspartate ligase) (AdSS) (AMPSase) (432 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 13/24 (54%) Frame = +1 Query: 84 MKELEDRGIPVRERLLLSEACPLI 107 M LE GIP + LLS+ L+ Sbjct: 1777 MNRLEAAGIPTQMERLLSDNEALV 1848 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PURK_ECOLI P09029 Phosphoribosylaminoimidazole carboxylase ATPase subunit (4.1.1.21) (AIR carboxylase) (AIRC) (355 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 4/16 (25%), Positives = 11/16 (68%) Frame = +2 Query: 119 VKRRTGGYDGRGQWRL 134 + R+TG ++ +W++ Sbjct: 3983 IDRKTGDFETFRRWKV 4030 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PURR_ECOLI P0ACP7 HTH-type transcriptional repressor purR (Purine nucleotide synthesis repressor) (Pur regulon repressor) (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -3 Query: 134 LEEYRHIPMV 143 ++ YRH+P+V Sbjct: 1211 VKRYRHVPLV 1182 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PURT_ECOLI P33221 Phosphoribosylglycinamide formyltransferase 2 (GART 2) (2.1.2.-) (GAR transformylase 2) (5'-phosphoribosylglycinamide transformylase 2) (Formate-dependent GAR transformylase) (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 10/22 (45%) Frame = -2 Query: 116 GIRRLAAEELQLPTSTYRFADS 137 GIRR+ + YRF S Sbjct: 5676 GIRRIDVSSFSTNFNLYRFTFS 5611 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 75 KPHYIVPE 82 KP Y++PE Sbjct: 6757 KPRYLLPE 6734 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PURU_ECOLI P37051 Formyltetrahydrofolate deformylase (3.5.1.10) (Formyl-FH(4) hydrolase) (280 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%) Frame = -1 Query: 11 TICPDQKGLIARITNI-CYKHELNIVQNNEFVDHRTGRFFMRTELEGI 57 TI P++ + RIT CY H + NN+ + + R ++ EL I Sbjct: 4837 TIAPNR---LCRITFFNCYVHRFCVFVNND-RSYLSWRHSVKNELSRI 4706 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +1 Query: 204 QAYERGVKIIGATAHYVNDNL 224 +AYE+ K IG +DN+ Sbjct: 2272 EAYEQVAKRIGVPLAPFSDNV 2334 Score = 15.8 bits (29), Expect = 9.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = +3 Query: 118 IGNHDTLR 125 IG H TLR Sbjct: 2940 IGRHATLR 2963 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUTA_ECOLI P09546 Bifunctional protein putA (Proline dehydrogenase) (1.5.99.8) (Proline oxidase) (Delta-1-pyrroline-5-carboxylate dehydrogenase) (P5C dehydrogenase) (1.5.1.12) (1320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.26, Method: Compositional matrix adjust. Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 3/39 (7%) Frame = +1 Query: 1030 NRNQLPELI-EQINASGYGLTLGVHTRI--DETIAQVTG 1065 N + PE I EQI + Y +T H R DE A+V G Sbjct: 5989 NEGKWPEPIAEQIELTDYHVTTSQHARAAEDENDAKVEG 6105 Score = 20.0 bits (40), Expect = 2.8, Method: Compositional matrix adjust. Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 1/41 (2%) Frame = +1 Query: 92 RAAITAAYRRPETEAVSMLLE-QARLPQPVAEQAHKLAYQL 131 R I +R EA M E + + P+P+AEQ Y + Sbjct: 5926 RRKIEEDAKRVAEEARKMAAENEGKWPEPIAEQIELTDYHV 6048 Score = 19.2 bits (38), Expect = 5.5, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%) Frame = +2 Query: 1016 QKEVFGPVLHVVRYNRNQLPELIE 1039 Q+++ + + YNR L +LIE Sbjct: 1043 QEKMVTSNIEIQHYNRAMLNKLIE 1114 Score = 18.5 bits (36), Expect = 8.7, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 9/16 (56%) Frame = -3 Query: 695 APIWFATPPAERAAIL 710 API PPA AA L Sbjct: 6647 APICCVIPPASPAATL 6600 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUTP_ECOLI P07117 Sodium/proline symporter (Proline permease) (502 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUUA_ECOLI P78061 Gamma-glutamylputrescine synthetase (Gamma-Glu-Put synthetase) (6.3.1.11) (Glutamate--putrescine ligase) (472 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUUB_ECOLI P37906 Gamma-glutamylputrescine oxidoreductase (Gamma-glutamylputrescine oxidase) (Gamma-Glu-Put oxidase) (1.4.3.-) (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 112 KRYQIDCDYRPGGL 125 +RY C Y P G+ Sbjct: 2532 QRYVHSCTYSPYGV 2491 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%) Frame = +1 Query: 231 IVAGNAYLGDKVE-PELAKRSMPCGTQVITT 260 +V + +G+ V ELA + G+QVI T Sbjct: 6265 VVNRDVIIGETVTVAELANKMAVKGSQVIKT 6357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUUC_ECOLI P23883 Gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase (Gamma-Glu-gamma-aminobutyraldehyde dehydrogenase) (1.2.1.-) (495 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 14/24 (58%) Frame = -2 Query: 1 MNFHHLAYWQDKALSLAIENRLFI 24 + F+H A KA+ + + RLFI Sbjct: 2280 IGFYHTA*IATKAIFIHLF*RLFI 2209 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 7/14 (50%) Frame = -2 Query: 341 MGTLIDCAHADSVH 354 + L+DC H H Sbjct: 6402 INNLVDCCHTT*FH 6361 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 8/9 (88%) Frame = +1 Query: 69 VFERGDWSL 77 +FE+ DW++ Sbjct: 3304 LFEKNDWAI 3330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUUD_ECOLI P76038 Gamma-glutamyl-gamma-aminobutyrate hydrolase (Gamma-Glu-GABA hydrolase) (3.5.1.94) (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +1 Query: 84 DEPDADPGR 92 D+P+ADP R Sbjct: 6859 DKPNADPER 6885 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 241 ITACQHHIA 249 +T CQ H+A Sbjct: 731 LTVCQRHLA 705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUUE_ECOLI P50457 4-aminobutyrate aminotransferase (2.6.1.19) (Gamma-amino-N-butyrate transaminase) (GABA transaminase) (GABA aminotransferase) (GABA-AT) (Glutamate:succinic semialdehyde transaminase) (421 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 17/66 (25%), Positives = 26/66 (39%) Frame = -3 Query: 56 HRHPDLVAAVEQQLQQFTHTAYQIVPYESYVTLAEKINALAPVSGQAKTAFFTTGAEAVE 115 +RH LV ++ F H Y Y S ++ + VS +K FF V Sbjct: 1202 YRHVPLVPLGDRFCLCFEHYCYYCGFYLSLQSIYST*HDCNVVSRYSK*PFFLVVVNPVI 1023 Query: 116 NAVKIA 121 + +K A Sbjct: 1022 SPLKQA 1005 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUUP_ECOLI P76037 Putrescine importer (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 11/15 (73%), Gaps = 1/15 (6%) Frame = -3 Query: 442 IRRYRKVPLYD-GDR 455 ++RYR VPL GDR Sbjct: 1211 VKRYRHVPLVPLGDR 1167 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PUUR_ECOLI P0A9U6 HTH-type transcriptional regulator puuR (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = -3 Query: 56 LKVYGLSLSEFFSEPEKP 73 +K GL FFS +KP Sbjct: 3347 IKKKGLIAQSFFSNNKKP 3294 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = +2 Query: 110 IFETYQPGTTTGERIKHQGE 129 IFE + T + KH+ E Sbjct: 3905 IFEALEIALATATKKKHEQE 3964 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRB_ECOLI P0A786 Aspartate carbamoyltransferase catalytic chain (2.1.3.2) (Aspartate transcarbamylase) (ATCase) (311 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.36, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 1/25 (4%) Frame = +3 Query: 162 GDL-KYGRTVHSLTQALAKFDGNRF 185 GDL +Y R A + GNR+ Sbjct: 6675 GDLLRYTRACCVYINACTRCSGNRY 6749 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 14/27 (51%) Frame = +1 Query: 59 SFETSMHRLGASVVGFSDSANTSLGKK 85 ++E R+G + FSD N S KK Sbjct: 2275 AYEQVAKRIGVPLAPFSD--NVSANKK 2349 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = +2 Query: 234 ERLDPSEYANVKAQFVLRA 252 ER+D + + AQFVL A Sbjct: 4676 ERIDIVLWDDNPAQFVLNA 4732 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRC_ECOLI P05020 Dihydroorotase (DHOase) (3.5.2.3) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.80, Method: Compositional matrix adjust. Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 2/43 (4%) Frame = +3 Query: 224 PILKRNIHQQALREL--VASGFNRVFLGTDSAPHARHRKESSC 264 P+L++ RE+ F + F+G+ + + R SSC Sbjct: 3147 PLLEKFFSNTIFREIN*YRF*FEKTFIGSHAEGFFQRRIGSSC 3275 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +2 Query: 174 VVFEHITTKDAADYV 188 VVF+ ITT+ A + Sbjct: 4169 VVFDRITTQTAKQVI 4213 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 216 VRPHLYCLP 224 +RP L C+P Sbjct: 3444 IRPLLICVP 3418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRD_ECOLI P0A7E1 Dihydroorotate dehydrogenase (1.3.5.2) (Dihydroorotate oxidase) (DHOdehase) (DHODase) (DHOD) (336 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRE_ECOLI P0A7E3 Orotate phosphoribosyltransferase (OPRT) (OPRTase) (2.4.2.10) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 5/12 (41%) Frame = +3 Query: 96 CFNRKEAKDHGE 107 CF R HG Sbjct: 6519 CFTRPRRHHHGS 6554 Score = 15.8 bits (29), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/31 (22%), Positives = 17/31 (54%) Frame = +2 Query: 164 ISAIQEVERDYNCKVISIITLKDLIAYLEEK 194 + A QE+ ++ + I T ++ Y+E++ Sbjct: 4067 LEAAQEISKEEAQQNTPISTESEIPTYIEDQ 4159 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRF_ECOLI P08244 Orotidine 5'-phosphate decarboxylase (4.1.1.23) (OMP decarboxylase) (OMPDCase) (OMPdecase) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +2 Query: 179 VFGQEFKLVTPGIRP 193 + GQE L IRP Sbjct: 4352 IIGQEDMLPRENIRP 4396 Score = 15.8 bits (29), Expect = 8.8, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +2 Query: 94 WMVNV 98 WMVNV Sbjct: 1709 WMVNV 1723 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRG_ECOLI P0A7E5 CTP synthase (6.3.4.2) (UTP--ammonia ligase) (CTP synthetase) (545 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.20, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 16/24 (66%) Frame = +1 Query: 463 IVERHRHRYEVNNMLLKQIEDAGL 486 + + + Y+VN++L K +DAGL Sbjct: 2047 LAQMKKLSYQVNDVLSKLFDDAGL 2118 Score = 20.0 bits (40), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 3/26 (11%) Frame = +2 Query: 45 INVDPGTMSPIQHGE---VFVTEDGA 67 +N G + P+QHG V++ GA Sbjct: 638 LNASQGIILPLQHGTYDIAQVSQQGA 715 Score = 16.9 bits (32), Expect = 9.6, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 11/18 (61%) Frame = +2 Query: 87 RNNFTTGRIYSDVLRKER 104 R+NF+TG+ + + R Sbjct: 3389 RDNFSTGKSLGTQISRGR 3442 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRH_ECOLI P0A7E9 Uridylate kinase (UK) (2.7.4.22) (Uridine monophosphate kinase) (UMP kinase) (UMPK) (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.45, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 16/37 (43%) Frame = +2 Query: 119 WAEAISLLRNNRVVILSAGTGNPFFTTDSAACLRGIE 155 W++ ++++N + I N TTD R E Sbjct: 842 WSQITTVMQNESLPIADRQDANQTLTTDWIKWNRADE 952 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= PYRI_ECOLI P0A7F3 Aspartate carbamoyltransferase regulatory chain (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.0, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = -2 Query: 48 LPSGEMGRKDLIKIENTFLS 67 +PS + R +++ TFL+ Sbjct: 4353 IPSALLPRSNIMLSRLTFLT 4294 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= QMCA_ECOLI P0AA53 Protein qmcA (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +3 Query: 136 NSRLLRIVDEATNP 149 NSR L + D+ NP Sbjct: 381 NSRNLTLTDDIANP 422 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= QOR_ECOLI P28304 Quinone oxidoreductase (1.6.5.5) (NADPH:quinone reductase) (Zeta-crystallin homolog protein) (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -1 Query: 137 EIKPDEQFLFHAAAG 151 +I PD FLF G Sbjct: 3985 DINPDFNFLFMFFLG 3941 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -1 Query: 107 AILPAAISFEQAAASFLKGL 126 ++LPA + + SFL L Sbjct: 5419 SLLPATLWLHLSCCSFLLQL 5360 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +3 Query: 161 AKALGAKLIG 170 KALG KL+G Sbjct: 3408 VKALGHKLVG 3437 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= QSEB_ECOLI P52076 Transcriptional regulatory protein qseB (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= QSEC_ECOLI P40719 Sensor protein qseC (2.7.13.3) (449 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.050 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.050, Method: Compositional matrix adjust. Identities = 14/48 (29%), Positives = 21/48 (43%) Frame = +2 Query: 70 AQTPNRLKHGHVDDDALTFAIFTHDGRMVLNDGDNGEDIPYSYQREGF 117 A P + VD+DA T I +G G NG+++ Q G+ Sbjct: 4730 AMAPAEVASIVVDEDAKTMNIAVEEGNSAQAIGRNGQNVRLVSQLSGW 4873 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= QUEA_ECOLI P0A7F9 S-adenosylmethionine:tRNA ribosyltransferase-isomerase (5.-.-.-) (Queuosine biosynthesis protein queA) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.76, Method: Compositional matrix adjust. Identities = 14/46 (30%), Positives = 23/46 (50%) Frame = +1 Query: 77 KIEVLVERMLDDKRILAHIRASKAPKPGAELLLGDDESINATMTAR 122 KIE +R+ ++ R +A K P+P AE + D + + AR Sbjct: 5932 KIEEDAKRVAEEARKMAAENEGKWPEPIAEQIELTDYHVTTSQHAR 6069 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 13/26 (50%) Frame = -3 Query: 2 RVTDFSFELPESLIAHYPMPERSSCR 27 R T LP S H P+ +R +CR Sbjct: 4664 R*TQLEHVLPAS--QHMPL*DRYACR 4593 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = +1 Query: 270 NDLIEPFFDDTQIFI 284 ND++ FDD + + Sbjct: 2080 NDVLSKLFDDAGLIL 2124 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= QUEC_ECOLI P77756 Queuosine biosynthesis protein queC (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +1 Query: 120 ITGVCETDFSGYPDCRD 136 ITG T +GY + RD Sbjct: 1024 ITGFTTTRKNGYFEYRD 1074 Score = 16.2 bits (30), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +1 Query: 215 ADKPTVMAAMKQKTGL 230 D P V + K+ TG+ Sbjct: 6934 GDSPFVHVSAKKGTGI 6981 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= QUEF_ECOLI Q46920 NADPH-dependent 7-cyano-7-deazaguanine reductase (1.7.1.13) (7-cyano-7-carbaguanine reductase) (PreQ(0) reductase) (NADPH-dependent nitrile oxidoreductase) (282 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +3 Query: 165 DYLENATCGEK 175 DY N CG + Sbjct: 198 DYFSNGQCGSR 230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RACC_ECOLI P15033 Protein racC (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.23, Method: Composition-based stats. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = +3 Query: 49 GNVKTLDEGVKKMCLVHIGKNL 70 G+V E V K+CL G+N+ Sbjct: 4617 GHVLGCGEHVFKLCLTSWGENV 4682 Score = 15.4 bits (28), Expect = 3.5, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +1 Query: 1 MITNYEA 7 M+TNY + Sbjct: 841 MVTNYHS 861 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RACR_ECOLI P76062 Rac prophage repressor (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 4/18 (22%), Positives = 8/18 (44%) Frame = +2 Query: 22 GSVKSKAEVARHFKVQPP 39 V + V + ++PP Sbjct: 692 AQVSQQGAVGKQLDIRPP 745 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RADA_ECOLI P24554 DNA repair protein radA (DNA repair protein sms) (460 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RADC_ECOLI P25531 DNA repair protein radC (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +2 Query: 12 EKMLKFGISALTDVELL 28 E + + G+S L D+E L Sbjct: 5240 EDLAEQGVSDLADIEEL 5290 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RAIA_ECOLI P0AD49 Ribosome-associated inhibitor A (Protein Y) (SpotY) (pY) (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.23, Method: Compositional matrix adjust. Identities = 18/52 (34%), Positives = 25/52 (48%) Frame = +1 Query: 54 INTPNGVLVASGKHEDMYTAINELINKLERQLNKLQHKGEARRAATSVKDAN 105 INTPN L + K A E ++E Q+ K K E + + S K+AN Sbjct: 5659 INTPNAELANTEK------AKTEQAKQVE-QVEKKPAKAEEQAKSESAKEAN 5793 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RAPA_ECOLI P60240 RNA polymerase-associated protein rapA (3.6.1.-) (ATP-dependent helicase hepA) (968 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -1 Query: 777 ITWEHPLIRNGL 788 +TW+ LIRNG Sbjct: 3901 LTWKGFLIRNGF 3866 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RARA_ECOLI P0AAZ4 Replication-associated recombination protein A (447 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 416 YFPTNRGLE 424 +FPT GLE Sbjct: 4030 HFPTTEGLE 4004 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RARD_ECOLI P27844 Protein rarD (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +1 Query: 226 PLLCFTAAATR 236 PL+C ATR Sbjct: 3502 PLICVQMLATR 3534 Score = 16.2 bits (30), Expect = 9.3, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 16/35 (45%) Frame = -3 Query: 199 DSSTSHMGQNPMSLNLLLIAAGIVTTVPLLCFTAA 233 DSS + L++LLI T L C+ A+ Sbjct: 6902 DSSVLRRSGSAFGLSILLITTTTGTFAALACWMAS 6798 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RAVA_ECOLI P31473 ATPase ravA (3.6.3.-) (Regulatory ATPase variant A) (498 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBFA_ECOLI P0A7G2 Ribosome-binding factor A (Protein P15B) (133 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +2 Query: 17 KEIALILQREIKDP 30 KEIA++ E+K P Sbjct: 6101 KEIAVVAAGEVKLP 6142 Score = 16.5 bits (31), Expect = 2.7, Method: Composition-based stats. Identities = 11/40 (27%), Positives = 19/40 (47%) Frame = +3 Query: 52 VYVTFLNDKDEDAVKAGIKALQEASGFIRSLLGKAMRLRI 91 V ++ L K + + A +KAL + + G+ LRI Sbjct: 3357 VSLSTLEQKLTEIISAPVKALGHKLVGVEFIPGRQSTLRI 3476 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBN_ECOLI P0A8K8 tRNA-processing ribonuclease BN (RNase BN) (3.1.-.-) (290 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.54 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.54, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%) Frame = -2 Query: 178 DNVLRIFPLLLSWISFWLLYSI 199 D VLR F WIS W +Y + Sbjct: 6915 DTVLR*FCSKTLWISVWFIYFV 6850 Score = 20.0 bits (40), Expect = 0.67, Method: Compositional matrix adjust. Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 2/43 (4%) Frame = +1 Query: 195 LLYSIVPTIRVPNRDAIVGA--FVAALLFEAGKKGFALYITMF 235 L S + V NRD I+G VA L + KG + TM Sbjct: 6235 LQQSFNKPVAVVNRDVIIGETVTVAELANKMAVKGSQVIKTMM 6363 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 19 WLKLLWQRIDED 30 W+K W R DED Sbjct: 926 WIK--WNRADED 955 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = -3 Query: 31 NMTTLAGN 38 N+TT++GN Sbjct: 47 NLTTVSGN 24 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBSA_ECOLI P04983 Ribose import ATP-binding protein rbsA (3.6.3.17) (501 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = -2 Query: 49 VLTGIYTRDAGT 60 VLT I RDAG+ Sbjct: 4590 VLTAILARDAGS 4555 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBSB_ECOLI P02925 D-ribose-binding periplasmic protein (Precursor) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +1 Query: 66 NNPAKELANVQ 76 N P ELAN + Sbjct: 5662 NTPNAELANTE 5694 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBSC_ECOLI P0AGI1 Ribose transport system permease protein rbsC (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBSD_ECOLI P04982 D-ribose pyranase (5.5.1.n1) (139 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.39, Method: Compositional matrix adjust. Identities = 9/13 (69%), Positives = 11/13 (84%) Frame = -2 Query: 12 SSVISRLGHTDTL 24 SSVISR+G T +L Sbjct: 4071 SSVISRVGITTSL 4033 Score = 16.9 bits (32), Expect = 2.4, Method: Composition-based stats. Identities = 8/26 (30%), Positives = 12/26 (46%) Frame = -2 Query: 44 LTQGVPSFMQVLGVVTNEMQVEAAII 69 + VPS + N+ + AAII Sbjct: 5391 ICHAVPSCYSYYALSPNQQILRAAII 5314 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBSK_ECOLI P0A9J6 Ribokinase (2.7.1.15) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.6, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = +1 Query: 2 QNAGSLVVLGSINADHILN 20 + AGSLV I + +LN Sbjct: 1891 RTAGSLVKRLGITENQVLN 1947 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RBSR_ECOLI P0ACQ0 Ribose operon repressor (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.49, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 13/27 (48%) Frame = -1 Query: 72 PFYSELVRGVERSCFERGYSLVLCNTE 98 PFY+ L + V R G LVL N Sbjct: 5980 PFYALLQQPVSRLLLSYGALLVLQNVS 5900 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RCMNS_ECOLI P69506 Regulator of cell morphogenesis and NO signaling (RCMNS) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RCNA_ECOLI P76425 Nickel/cobalt efflux system rcnA (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RCNR_ECOLI P64530 Transcriptional repressor rcnR (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RCSA_ECOLI P69405 Colanic acid capsular biosynthesis activation protein A (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.5, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = +2 Query: 20 LLSRGVKKREINDIETVDD 38 L +GV ++ DIE +DD Sbjct: 5246 LAEQGVS--DLADIEELDD 5296 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RCSB_ECOLI P69407 Capsular synthesis regulator component B (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.92, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +1 Query: 127 KKFTPESVSRLLEKIS 142 K+F + VSRL ++ + Sbjct: 532 KRFVADVVSRLFDRTT 579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RCSC_ECOLI P14376 Sensor kinase protein rcsC (2.7.13.3) (Capsular synthesis regulator component C) (949 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.44, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 17/32 (53%) Frame = +2 Query: 367 PVGICILRTADGVNILSNELAHTYLNMLTHED 398 P+G C+ V +SNEL ++++ +D Sbjct: 4610 PIGACVGMRGARVQAVSNELGGERIDIVLWDD 4705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RCSF_ECOLI P69411 Protein rcsF (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 6.8, Method: Composition-based stats. Identities = 7/22 (31%), Positives = 10/22 (45%) Frame = +3 Query: 86 PTARKRMQINASKMKANAVLLH 107 P R+ INA +L+H Sbjct: 558 PLVRQNNVINAK*AVMKPILMH 623 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RDGB_ECOLI P52061 Nucleoside-triphosphatase rdgB (3.6.1.15) (Nucleoside triphosphate phosphohydrolase) (NTPase) (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 182 HRGQALKLLL 191 HR Q + LLL Sbjct: 1504 HRNQRIILLL 1475 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RDGC_ECOLI P36767 Recombination-associated protein rdgC (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 16/32 (50%) Frame = +2 Query: 98 KLKKTEKDSLKDEVLHSLLPRAFSRFSQTMMW 129 K+ + E + +D+ S LPR R ++W Sbjct: 1163 KIGRLEVQAARDD---SALPRLIVRAPYAIVW 1249 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 12/17 (70%) Frame = +2 Query: 143 SAKKAEDTLALLRKSLG 159 S ++ + LAL+ KSLG Sbjct: 983 SVQQQGNQLALVVKSLG 1033 Score = 16.2 bits (30), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 141 CASAKKAE 148 C SAKKA+ Sbjct: 619 CTSAKKAQ 642 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RDOA_ECOLI P0C0K3 Protein rdoA (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.70, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 18/35 (51%) Frame = +1 Query: 223 NGPAVQDLWMLLNGDKAEQRMQLETIIEAYEEFSE 257 +G + D L DK R L +IEAYE+ ++ Sbjct: 2191 DGCRLWDKKTLEKMDKDRFRGNLGGVIEAYEQVAK 2295 Score = 16.2 bits (30), Expect = 9.0, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 12/23 (52%) Frame = +1 Query: 31 LTPLNSYENRVYQFQDEDRRRFV 53 L N Y ++ D+D +RFV Sbjct: 481 LGKYNGYITKISN--DKDNKRFV 543 Score = 16.2 bits (30), Expect = 9.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = -1 Query: 1 MNNSAFTFQTLHPDTI 16 ++NSAF+F PD + Sbjct: 2077 LDNSAFSFA---PDAL 2039 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REA1_ECOLI P13960 Putative defective replication initiation protein (RepFIC replication initiation protein) (Fragment) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.95 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.95, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -3 Query: 26 PHPFCSLL 33 PH CSLL Sbjct: 2489 PHKKCSLL 2466 Score = 16.5 bits (31), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 11/22 (50%) Frame = -1 Query: 25 YPHPFCSLLQKRAHFDSFKHLI 46 Y H FC + + S++H + Sbjct: 4792 YVHRFCVFVNNDRSYLSWRHSV 4727 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECA_ECOLI P0A7G6 Protein recA (Recombinase A) (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECE_ECOLI P15032 Exodeoxyribonuclease 8 (3.1.11.-) (Exodeoxyribonuclease VIII) (EXO VIII) (866 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECF_ECOLI P0A7H0 DNA replication and repair protein recF (357 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 18/28 (64%) Frame = +2 Query: 311 ERRGLLASRLKATQSQVFVSAISAEHVI 338 ++RGLLA +KA +SQ + +S ++ Sbjct: 6188 KKRGLLA--VKAKESQALYNRVSISQLL 6265 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 39/168 (23%), Positives = 67/168 (39%), Gaps = 14/168 (8%) Frame = +2 Query: 166 RQVTRYEQLRPWDKELIPLAEQISTWRAEYSAGIAA-----DMADTCKQFLPEFSLTFSF 220 + V QL W+ ++ + E +AE I ++ + C L E + Sbjct: 4838 QNVRLVSQLSGWELNVMTINELKEKCQAETRTAIDMFIEHLEIDEECATVLVEAEFSSLE 5017 Query: 221 QRGWEKETEYAEVLERNFERDRQLTYTAHGPHKADLRIR-----ADGAPVEDTLSRGQLK 275 + + E+E E+ + +R ++L A L ++ D P +D L+ L Sbjct: 5018 ELAYVPESELPEIDSFDKKRLQELRDRAQNVLTT-LALKKEESFGDNKPADDLLNLASLD 5194 Query: 276 LLMCALRLAQGEFLTRESGRRCLYLIDDFAS--ELDDERRG--LLASR 319 M A +LA T E + D A ELDDE+ G ++A+R Sbjct: 5195 RDM-AFKLAACGVCTLEDLAE--QGVSDLADIEELDDEKAGKLIMAAR 5329 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 8/10 (80%), Positives = 8/10 (80%) Frame = +2 Query: 4 TRLLIRDFRN 13 TRLLIR RN Sbjct: 6389 TRLLIRKQRN 6418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECG_ECOLI P24230 ATP-dependent DNA helicase recG (3.6.1.-) (693 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.089 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.089, Method: Compositional matrix adjust. Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 5/49 (10%) Frame = -3 Query: 377 GTHAIFQEQVQFNGLALVIIDEQHRFGVHQRLALWEKGQ-----QQGFH 420 GTH + NG A+ +ID + G LA W K QGF+ Sbjct: 3542 GTHLVANICTHINGDAIAVIDINTQCG----LAPWNKFDPY*FVSQGFY 3408 Score = 17.7 bits (34), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -1 Query: 148 LTPVYPTTEGVKQATL 163 T +PTTEG++ + Sbjct: 4039 FTDHFPTTEGLEISCF 3992 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECJ_ECOLI P21893 Single-stranded-DNA-specific exonuclease recJ (3.1.-.-) (577 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 555 KLDINEFRGN 564 K+D + FRGN Sbjct: 2227 KMDKDRFRGN 2256 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECN_ECOLI P05824 DNA repair protein recN (Recombination protein N) (553 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -3 Query: 97 ISSDGRSRGFI 107 +S+DGRSR + Sbjct: 4028 LSNDGRSRNLL 3996 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECO_ECOLI P0A7H3 DNA repair protein recO (Recombination protein O) (242 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.069 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.069, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 13/23 (56%) Frame = +2 Query: 151 CAGSGEPVDDTMTYRYREEKGFI 173 C SGE + TY+ + E+G + Sbjct: 6917 CQKSGEEIPHLFTYQLKREQGLM 6985 Score = 21.2 bits (43), Expect = 0.20, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 15/24 (62%) Frame = +1 Query: 122 GVTGTPEPALRRFELALLGHLGYG 145 GV G E ALR + ++GH+ +G Sbjct: 6502 GVAG--ESALRAPVVTIMGHVDHG 6567 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = -2 Query: 37 KGARSKRSTLKGALQPFTPLLL 58 + R K + GAL+ PLL+ Sbjct: 3492 RSYRYKYAVWIGALE*IRPLLI 3427 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECQ_ECOLI P15043 ATP-dependent DNA helicase recQ (3.6.1.-) (609 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -3 Query: 71 VSPLISLMKDQVDQLQANGV 90 +SP I L D + + ANG Sbjct: 2363 ISP*IFLFADTLSEKGANGT 2304 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECR_ECOLI P0A7H6 Recombination protein recR (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 12/23 (52%), Gaps = 2/23 (8%) Frame = +3 Query: 64 TEQEVCNICSNPRRQE--NGQIC 84 TE + + CS PRR NG C Sbjct: 6240 TEFQ*ASCCSQPRRYHW*NGHRC 6308 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECT_ECOLI P33228 Protein recT (P33) (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.40, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 14/31 (45%) Frame = -1 Query: 97 HAYLLPFGNKNEKSGKKNVQLIIGYRGMIDL 127 H L PF E+ G L+ GYR I L Sbjct: 6985 HQSLFPF*LIREQMGNLLPTLLAGYRAEIVL 6893 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RECX_ECOLI P33596 Regulatory protein recX (Protein oraA) (166 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = +2 Query: 139 EKVKIQRFLLYRGYLMEDI 157 +KVK+QR L + L + + Sbjct: 5765 QKVKVQRKLTRKKSLTQKV 5821 Score = 15.4 bits (28), Expect = 8.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 7/14 (50%) Frame = +3 Query: 114 DIDWCALARDQATR 127 D DW A ATR Sbjct: 2550 DFDWTYCAYRIATR 2591 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REDF_ECOLI P06615 Resolvase (Protein D) (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +2 Query: 158 NRRTGRTEKARIWEVTDRTV 177 +R+TG E R W+V V Sbjct: 3986 DRKTGDFETFRRWKVVSEVV 4045 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +3 Query: 47 ELPKYLLAPEV 57 E+P YLLA V Sbjct: 4443 EVPNYLLAVHV 4475 Score = 16.2 bits (30), Expect = 8.2, Method: Compositional matrix adjust. Identities = 7/30 (23%), Positives = 16/30 (53%) Frame = +1 Query: 202 HTFRHSYAMHMLYAGIPLKVLQSLMGHKSI 231 + F H + AGIP ++ + L ++++ Sbjct: 1756 NKFNHFIMNRLEAAGIPTQMERLLSDNEAL 1845 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RELA_ECOLI P0AG20 GTP pyrophosphokinase (2.7.6.5) (ATP:GTP 3'-pyrophosphotransferase) (ppGpp synthetase I) ((p)ppGpp synthetase) (744 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +2 Query: 452 TYQLQMGD 459 +YQLQ+GD Sbjct: 1397 SYQLQVGD 1420 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RELB_ECOLI P0C079 Antitoxin RelB (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = +1 Query: 23 MGVTPSEALR 32 MGV ALR Sbjct: 6499 MGVAGESALR 6528 Score = 13.9 bits (24), Expect = 8.5, Method: Compositional matrix adjust. Identities = 11/44 (25%), Positives = 23/44 (52%) Frame = +2 Query: 34 MLEYIADNERLPFKQTLLSDEDAELVEIVKERLRNPKPVRVTLD 77 ++E +++ + LP ++ + E A L K++ VRV +D Sbjct: 3860 VVEAVSNEKSLPREKIFEALEIA-LATATKKKHEQEIEVRVNID 3988 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RELE_ECOLI P0C077 Toxin relE (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REM_ECOLI P07010 Uncharacterized protein rem (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REND_ECOLI P75718 Putative defective protein ren from DLP12 prophage (100 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.6, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 24 AVTGATVTSIN 34 A TGA + S+N Sbjct: 3415 AFTGAEIISVN 3383 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REPB_ECOLI Q57154 RepFIB replication protein A (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.56, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 11/24 (45%) Frame = -3 Query: 97 IGDKVELPFVEFAKLCGIPSSQSS 120 +GD+ L F + CG S S Sbjct: 1178 LGDRFCLCFEHYCYYCGFYLSLQS 1107 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +3 Query: 262 RGRTKFFCIHYRRPRLKAP 280 RG T YR+P K+P Sbjct: 1896 RGFTGEAVRDYRKPSAKSP 1952 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REPE1_ECOLI P03856 Replication initiation protein (Protein rep) (Protein E) (Protein F4) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 7/16 (43%) Frame = -2 Query: 111 SFPWFIKRAHSPSRGL 126 S PW I H P G Sbjct: 6705 SMPWCI*EGHHPVFGF 6658 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 18/36 (50%) Frame = -1 Query: 4 TAVINHKKRKNSPRIVQSNDLTEAAYSLSRDQKRML 39 A+ N S + VQ+ ++ YSL R QKR L Sbjct: 2419 NAI*NGVDTNESLQSVQAQFHLKSFYSLIRCQKRAL 2312 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REPL1_ECOLI P56980 Positive regulator of RepFIC repA1 expression (RepA1 leader peptide) (24 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -3 Query: 5 VQDFFLCSLLLCIVSA 20 V +FF ++ L VSA Sbjct: 5852 VVNFFFSTIGLLFVSA 5805 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REP_ECOLI P09980 ATP-dependent DNA helicase rep (3.6.1.-) (673 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 481 GMDYESWLYET 491 +DY +WL ET Sbjct: 6276 AVDYSNWLIET 6244 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REQ1_ECOLI Q47274 Antitermination protein Q homolog from lambdoid prophage DLP12 (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.8, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 97 KRLQKAEGII 106 KRL ++GII Sbjct: 632 KRLNASQGII 661 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= REQ2_ECOLI P76161 Antitermination protein Q homolog from lambdoid prophage Qin (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.98, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +3 Query: 187 CGRCNGNRF 195 C RC+GNR+ Sbjct: 6723 CTRCSGNRY 6749 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RF1_ECOLI P0A7I0 Peptide chain release factor 1 (RF-1) (360 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RF2_ECOLI P07012 Peptide chain release factor 2 (RF-2) (365 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RF3_ECOLI P0A7I4 Peptide chain release factor 3 (RF-3) (529 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 44 8e-08 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 43.9 bits (102), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 41/154 (26%), Positives = 65/154 (42%) Frame = +1 Query: 18 IISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQF 77 I+ H D GKT++ + + A AG G QH + +E E Sbjct: 6544 IMGHVDHGKTSLLDCIRSTKVAAGEAG-----GITQHIGAYHVETE-------------- 6666 Query: 78 PYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTPI 137 + +V LDTPGH F+ R A D ++V+ A GV +T + ++ + P+ Sbjct: 6667 ---NGMVTFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAKVPV 6837 Query: 138 LTFMNKLDRDIRDPMELLDEVENELKIGCAPITW 171 + +NK+D+ DP L E+ G P W Sbjct: 6838 VVVINKIDKPNADPERLRTELSQH---GILPEEW 6930 Score = 19.2 bits (38), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = -1 Query: 359 AYPGDILGLHN 369 A P DI G HN Sbjct: 5347 AKPADIAGCHN 5315 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAB_ECOLI P27127 Lipopolysaccharide 1,6-galactosyltransferase (2.4.1.-) (UDP-D-galactose--(Glucosyl)lipopolysaccharide-alpha-1, 3-D-galactosyltransferase) (369 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.11, Method: Compositional matrix adjust. Identities = 12/27 (44%), Positives = 16/27 (59%) Frame = +2 Query: 212 LSQAKGNWKLHVLGDGSDFEKCQAYGR 238 +SQ G W+L+V+ EKCQA R Sbjct: 4853 VSQLSG-WELNVMTINELKEKCQAETR 4930 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 11/24 (45%) Frame = -2 Query: 191 FIYVGRMKFEGQKRVKDLLDGLSQ 214 FIY G R +LDGL + Sbjct: 6864 FIYFVDNNDNGDFRCFSMLDGLDR 6793 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -2 Query: 68 SFSNIRLGFLRRA 80 +FSN+ +GF A Sbjct: 2298 TFSNLLIGFYHTA 2260 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAC_ECOLI P24173 Lipopolysaccharide heptosyltransferase 1 (2.-.-.-) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.27, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 20/47 (42%) Frame = +1 Query: 121 EPLASLFYNRKHHIAKQQHAVERTRELFAKSLGYSKPQTQGDYAIAQ 167 EP+A +H+ QHA E AK G + +++G Q Sbjct: 6007 EPIAEQIELTDYHVTTSQHARAAEDENDAKVEGDRRSRSRGSKTTKQ 6147 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = +3 Query: 95 GLVKSAALVTRL 106 LVK+ ALVT L Sbjct: 4374 CLVKTYALVTAL 4409 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAF_ECOLI P37692 ADP-heptose--LPS heptosyltransferase 2 (2.-.-.-) (ADP-heptose--LPS heptosyltransferase II) (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.29, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 17/31 (54%) Frame = +2 Query: 43 PLLSRMPEVNEAIPMPLGHGALEIGERRKLG 73 P L R+ ++ I +PL HG +I + + G Sbjct: 623 PALKRL-NASQGIILPLQHGTYDIAQVSQQG 712 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 15/19 (78%) Frame = +2 Query: 231 ILAALNTEQQAWCRNLAGE 249 +LAA +TEQ+ + R ++G+ Sbjct: 551 LLAACSTEQR-YKRQVSGD 604 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAG_ECOLI P25740 Lipopolysaccharide core biosynthesis protein rfaG (2.4.-.-) (Glucosyltransferase I) (374 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAH_ECOLI P0AFW0 Transcriptional activator rfaH (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.006 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.8 bits (55), Expect = 0.006, Method: Compositional matrix adjust. Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 9/75 (12%) Frame = +1 Query: 32 MITLEKIVRGKRTAVSEPLFPNYLFVEF--DPEVIHTTTINA-------TRGVSHFVRFG 82 M L ++ RGK V PNYL +EF D + I A +HF+ Sbjct: 1606 MQKLAELYRGKAKTVYTTEDPNYLVLEFRNDTSAMDGQRIQAFDRKGMINNKFNHFIMNR 1785 Query: 83 ASPAIVPSAVIHQLS 97 A +P+ + LS Sbjct: 1786 LEAAGIPTQMERLLS 1830 Score = 18.5 bits (36), Expect = 1.00, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 19/36 (52%) Frame = +2 Query: 6 LLYCKRGQLQRAQEHLERQAVNCLAPMITLEKIVRG 41 L YC + +++ HLER + P + L+ +V+ Sbjct: 2573 LSYCNKVKVRIWALHLER-----VPPQLCLDLVVQA 2665 Score = 16.9 bits (32), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 17/37 (45%) Frame = -1 Query: 77 HFVRFGASPAIVPSAVIHQLSVYKPKDIVDPATPYPG 113 H V+ S I+P I+ S + ++ +P+P Sbjct: 4735 HSVKNELSRIIIPQNDINTFSPQLVRHSLNTCSPHPN 4625 Score = 15.8 bits (29), Expect = 5.3, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +1 Query: 1 MQSWYLLYC 9 + +W L YC Sbjct: 667 ITAWNLRYC 693 Score = 15.4 bits (28), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 151 KHSVKN 156 +HSVKN Sbjct: 4738 RHSVKN 4721 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAI_ECOLI P27128 Lipopolysaccharide 1,3-galactosyltransferase (2.4.1.44) (Lipopolysaccharide 3-alpha-galactosyltransferase) (339 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAJ_ECOLI P27129 Lipopolysaccharide 1,2-glucosyltransferase (2.4.1.58) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 10/21 (47%) Frame = +2 Query: 11 KVKAWDFRLANINTSECLNVA 31 KV+ W L + CL++ Sbjct: 2594 KVRIWALHLERVPPQLCLDLV 2656 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAL_ECOLI P27243 O-antigen ligase (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = -1 Query: 65 ENYNIKNLILPLS 77 E+Y++K LP+S Sbjct: 2974 EHYHLKVACLPIS 2936 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAP_ECOLI P25741 Lipopolysaccharide core heptose(I) kinase rfaP (2.7.1.-) (265 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = +2 Query: 189 HRAQIRAKVPRRWRD 203 H A + P+RW D Sbjct: 2 HHAPVVIYCPKRW*D 46 Score = 16.2 bits (30), Expect = 8.6, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%) Frame = -1 Query: 163 CYICHFLLHLPFTGREDELKISVIDL 188 C+ HF H P T + L+IS + Sbjct: 4054 CWHNHFTDHFPTT---EGLEISCFSI 3986 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAQ_ECOLI P25742 Lipopolysaccharide core heptosyltransferase rfaQ (2.-.-.-) (344 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.25 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.25, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 12/16 (75%) Frame = +1 Query: 266 AAVKTPVISLFGATDH 281 +A++ PV+++ G DH Sbjct: 6517 SALRAPVVTIMGHVDH 6564 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = -3 Query: 7 MLLTTPVISTLKQ 19 +++ PVIS LKQ Sbjct: 1046 LVVVNPVISPLKQ 1008 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAS_ECOLI P27126 Lipopolysaccharide core biosynthesis protein rfaS (311 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAY_ECOLI P27240 Lipopolysaccharide core heptose(II) kinase rfaY (2.7.1.-) (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 15/42 (35%), Positives = 20/42 (47%) Frame = -2 Query: 159 GDPHRGNFIIKNGEVRIIDLSGKRASAQRKAKDRIDLERHYG 200 G R + I +G R+I+ G RAS + K I L R G Sbjct: 4512 GTSMRKSSISISGRERLINNWGPRASGRISYK--IPLMRSPG 4393 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -2 Query: 95 EGLNTLN 101 EGLNTL Sbjct: 1734 EGLNTLT 1714 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFAZ_ECOLI P27241 Lipopolysaccharide core biosynthesis protein rfaZ (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFBB_ECOLI P37759 dTDP-glucose 4,6-dehydratase (4.2.1.46) (361 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +1 Query: 104 TYVLLEAARNYWSAL 118 TY+ + A RN+ AL Sbjct: 2854 TYLCIGAQRNFKLAL 2898 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFBC_ECOLI P37745 dTDP-4-dehydrorhamnose 3,5-epimerase (5.1.3.13) (dTDP-4-keto-6-deoxyglucose 3,5-epimerase) (dTDP-L-rhamnose synthetase) (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.20, Method: Compositional matrix adjust. Identities = 15/52 (28%), Positives = 22/52 (42%) Frame = -1 Query: 117 FAHGFLVLSDIAEFQYKTTNYYHPESDCGICWNDERIAIDWPQTSGLILSPK 168 FA L+ ++ + F T P + I + R I + LILSPK Sbjct: 3796 FALRILLSANTSSFPSTVTMIISPSTALMIPCHLRRFCIAI-RNVKLILSPK 3644 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 8/18 (44%) Frame = +3 Query: 138 YHPESDCGICWNDERIAI 155 Y CG WND ++ Sbjct: 201 YFSNGQCGSRWNDGALST 254 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 10/19 (52%) Frame = -1 Query: 129 EFQYKTTNYYHPESDCGIC 147 EFQ+ ++H S+ C Sbjct: 5641 EFQFVPIYFFHRSSEHLKC 5585 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFBD_ECOLI P37760 dTDP-4-dehydrorhamnose reductase (1.1.1.133) (dTDP-4-keto-L-rhamnose reductase) (dTDP-6-deoxy-L-mannose dehydrogenase) (dTDP-L-rhamnose synthetase) (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFBX_ECOLI P37746 Putative O-antigen transporter (415 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFC_ECOLI P37748 O-antigen polymerase (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 9/19 (47%) Frame = -2 Query: 4 LVISVFLITAFICLYLKKD 22 IS+F +T F C D Sbjct: 1080 CCISIFEVTIFSCCCKPSD 1024 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -1 Query: 116 LSNYQFG 122 LSNY FG Sbjct: 4363 LSNYSFG 4343 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFFA_ECOLI P27833 Lipopolysaccharide biosynthesis protein rffA (376 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 12/38 (31%), Positives = 17/38 (44%) Frame = -3 Query: 13 ELDYMQSAMGSGKLCGDGGFTRRCQQWLEQRFGSAKVL 50 ++ + SAMGSG L R RF S+ +L Sbjct: 6038 SVNSICSAMGSGHLPSFSAAILRASS--ATRFASSSIL 5931 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFFC_ECOLI P27832 Lipopolysaccharide biosynthesis protein rffC (2.3.1.-) (224 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 12/22 (54%) Frame = -3 Query: 22 AIVRITSEAPLLTPDALAPWSR 43 A++ I ++ LAPW++ Sbjct: 3491 AVIDINTQC------GLAPWNK 3444 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFFG_ECOLI P27830 dTDP-glucose 4,6-dehydratase (4.2.1.46) (355 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%) Frame = -3 Query: 14 GSALVRYIINETS-DAVVVVDKLTYAGNLMSLAP 46 G+ LV I + DA+ V+D T G LAP Sbjct: 3542 GTHLVANICTHINGDAIAVIDINTQCG----LAP 3453 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RFH_ECOLI P28369 Putative peptide chain release factor homolog (RF-H) (166 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 113 HANKRLARLLI 123 H N+R+ LLI Sbjct: 1504 HRNQRIILLLI 1472 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAA_ECOLI P32170 L-rhamnose isomerase (5.3.1.14) (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.37, Method: Compositional matrix adjust. Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 7/52 (13%) Frame = +1 Query: 21 IDVEEALRQLDRLPV-------SMHCWQGDDVSGFENPEGSLTGGIQATGNY 65 I ++EA L+RL + + GDD +GF+ + G I T N Sbjct: 67 IGLKEATGNLERLSMIKPSVGDNFILLSGDDATGFDFIQKGGQGIISVTANV 222 Score = 16.9 bits (32), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/29 (24%), Positives = 15/29 (51%) Frame = -3 Query: 143 DGFTLSHADDSIRQFWIDHCKASRRVSAY 171 D F++ DD++ + HC R + ++ Sbjct: 3737 DHFSIDSLDDTLPLTTVLHCYT*R*IDSF 3651 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAB_ECOLI P32171 Rhamnulokinase (2.7.1.5) (Rhamnulose kinase) (489 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 187 INSDDWD 193 INS DWD Sbjct: 1340 INSRDWD 1360 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +3 Query: 107 TNGLMAQAQQQLGKR 121 TNG A Q+ +GK+ Sbjct: 1809 TNGTTAFRQRSIGKK 1853 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 9/20 (45%) Frame = -2 Query: 400 VGGGCQNTLLNQLCADACGI 419 +GG N L C D C I Sbjct: 747 IGGRMSNCLPTAPCCDTCAI 688 Score = 17.7 bits (34), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = -1 Query: 35 IHRFNNGLHSQNGYVTW 51 +HRF +++ Y++W Sbjct: 4789 VHRFCVFVNNDRSYLSW 4739 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 15/29 (51%) Frame = -3 Query: 342 PETMCSEIQAACRETAQPIPESDAELARC 370 PE++CS A+ + P A++A C Sbjct: 3857 PESLCSS*VASSKFLKVGCPVCFADIA*C 3771 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAD_ECOLI P32169 Rhamnulose-1-phosphate aldolase (4.1.2.19) (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 15/31 (48%) Frame = +1 Query: 236 QVLVKVYSMGGMKQTISREELIALGKRFGVT 266 + LVK M ++ I +L KR G+T Sbjct: 1837 EALVKRLEMIPIECVIRNRTAGSLVKRLGIT 1929 Score = 15.8 bits (29), Expect = 10.0, Method: Compositional matrix adjust. Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 12/43 (27%) Frame = -3 Query: 33 LTLRLDDADIA---------PYHDNFHQQ---PRYIPLSQPMP 63 LT++ + A+IA P N ++ P P+S P+P Sbjct: 2717 LTIKNNVANIAVIRVIKLPEPLDPNRVEEAPAPNEAPISAPLP 2589 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAMD_ECOLI P77215 L-rhamnonate dehydratase (RhamD) (4.2.1.90) (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%), Gaps = 1/16 (6%) Frame = -1 Query: 391 VELNR-DCNLKRPYSH 405 EL R +KRPY H Sbjct: 2644 TELRRHPLQMKRPYPH 2597 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = +1 Query: 333 VYSHHAVITFTNTP 346 V + + ++TF +TP Sbjct: 6655 VETENGMVTFLDTP 6696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAM_ECOLI P32156 L-rhamnose mutarotase (5.1.3.n3) (Rhamnose 1-epimerase) (Type-3 mutarotase) (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.4, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +1 Query: 70 TDVCQRWWKYMTDVMP 85 TD+ K++++VMP Sbjct: 3193 TDIDFDLKKHLSEVMP 3240 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAR_ECOLI P09378 HTH-type transcriptional activator rhaR (L-rhamnose operon transcriptional activator rhaR) (282 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +2 Query: 87 IIYCPER 93 +IYCP+R Sbjct: 17 VIYCPKR 37 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 15/32 (46%), Positives = 18/32 (56%) Frame = +1 Query: 117 RLGSMGMAQARQVIGQLEHESSQHVPFANEMA 148 +LG GMA QVI Q E++Q V A EM Sbjct: 6364 KLG--GMATINQVIDQ---ETAQLV--AEEMG 6438 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAS_ECOLI P09377 HTH-type transcriptional activator rhaS (L-rhamnose operon regulatory protein rhaS) (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.60, Method: Composition-based stats. Identities = 14/50 (28%), Positives = 25/50 (50%) Frame = +3 Query: 165 NLENSASRLNLLLAWLEDHFADEVNWDAVADQFSLSLRTLHRQLKQQTGL 214 NLE S+ L LL ED+ D + ++ +L+LR + ++ G+ Sbjct: 3579 NLEVSSPGLERLLFTAEDYT------DYLGERINLTLRIAMQNRRKWQGI 3710 Score = 18.5 bits (36), Expect = 1.7, Method: Composition-based stats. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = +3 Query: 79 LCLTNVLYRSPDRFQFLAGLNQLL 102 +CL+N+L QF + N LL Sbjct: 4941 ICLSNILKLMKSAPQFWSKQNFLL 5012 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -1 Query: 85 LYRSPDRFQF 94 L RSP RF+F Sbjct: 6688 LRRSPSRFRF 6659 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 12/23 (52%) Frame = +1 Query: 89 PDRFQFLAGLNQLLPQELDGQYP 111 P+R + + +LP+E G P Sbjct: 6877 PERLRTELSQHGILPEEWGGDSP 6945 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +3 Query: 58 TGGTVCFVRDHDRH 71 +GG +CF R H Sbjct: 6504 SGG*ICFTRPRRHH 6545 Score = 17.3 bits (33), Expect = 3.8, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +3 Query: 74 EHTDNLCLTN 83 EH LCLT+ Sbjct: 4638 EHVFKLCLTS 4667 Score = 15.8 bits (29), Expect = 9.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -1 Query: 23 LPQADFPEHHHD 34 L +DFP H D Sbjct: 2788 LVDSDFPTHCFD 2753 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHAT_ECOLI P27125 L-rhamnose-proton symporter (L-rhamnose-H(+) transport protein) (344 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 8/17 (47%) Frame = +3 Query: 34 WETMWSVGGIVSWIILP 50 W + G V W ILP Sbjct: 5202 WHSN*QRAGSVRWKILP 5252 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -1 Query: 290 ISWMLHMSFYVLCGG 304 IS +LH + C G Sbjct: 1003 ISLLLHTNLITACKG 959 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHLB_ECOLI P0A8J8 ATP-dependent RNA helicase rhlB (3.6.1.-) (421 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.85, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 13/28 (46%) Frame = +3 Query: 354 GHSISLACEEYALNLPAIETYIGHSIPV 381 GH + C+ A P + I S+P+ Sbjct: 843 GHKLPQ*CKTRASPSPIVRMQIKRSLPI 926 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 228 GHRIKEELFY 237 GH IK L+Y Sbjct: 2494 GHHIKNALYY 2465 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 1/27 (3%) Frame = +2 Query: 36 QALALPLTLAGRDVAGQAQTG-TGKTM 61 Q + LPL D+A +Q G GK + Sbjct: 650 QGIILPLQHGTYDIAQVSQQGAVGKQL 730 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHLE_ECOLI P25888 Putative ATP-dependent RNA helicase rhlE (3.6.1.-) (454 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.76, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +2 Query: 312 EELPHVVNYEL 322 EE+PH+ Y+L Sbjct: 6932 EEIPHLFTYQL 6964 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 1/30 (3%) Frame = +1 Query: 14 RAVAEQGYREPTPIQQQ-AIPAVLEGRDLM 42 RAV + R+P+ +QQ P + RD++ Sbjct: 6196 RAVGRKSKRKPSTLQQSFNKPVAVVNRDVI 6285 Score = 18.5 bits (36), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +2 Query: 311 IEELPHVVNYELPNV 325 +EEL +V ELP + Sbjct: 5012 LEELAYVPESELPEI 5056 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHO_ECOLI P0AG30 Transcription termination factor rho (3.6.1.-) (ATP-dependent helicase rho) (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHSA_ECOLI P16916 Protein rhsA (1377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/9 (88%), Positives = 8/9 (88%) Frame = +1 Query: 230 FSGEITGVT 238 FSGEITG T Sbjct: 1012 FSGEITGFT 1038 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHSB_ECOLI P16917 Protein rhsB (1411 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 5.4, Method: Compositional matrix adjust. Identities = 8/9 (88%), Positives = 8/9 (88%) Frame = +1 Query: 230 FSGEITGVT 238 FSGEITG T Sbjct: 1012 FSGEITGFT 1038 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHSC_ECOLI P16918 Protein rhsC (1397 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/9 (88%), Positives = 8/9 (88%) Frame = +1 Query: 230 FSGEITGVT 238 FSGEITG T Sbjct: 1012 FSGEITGFT 1038 Score = 18.9 bits (37), Expect = 8.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +3 Query: 1265 RSGPDIWGNPFYHQ 1278 R+G +I NP YH+ Sbjct: 30 RNGGEISSNPQYHR 71 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHSD_ECOLI P16919 Protein rhsD (1426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHSE_ECOLI P24211 Putative protein rhsE (682 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.83 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.83, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -2 Query: 549 SGVPGLIAANSITNSAYQF 567 SGVPGL+ + + + F Sbjct: 3810 SGVPGLLCGYCLVRTLHLF 3754 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHTA_ECOLI P0AA67 Inner membrane transporter rhtA (295 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHTB_ECOLI P0AG34 Homoserine/homoserine lactone efflux protein (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RHTC_ECOLI P0AG38 Threonine efflux protein (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIBA_ECOLI P0A7I7 GTP cyclohydrolase-2 (3.5.4.25) (GTP cyclohydrolase II) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 28 TGHDHVAL 35 +GHDH AL Sbjct: 5105 SGHDHAAL 5082 Score = 16.5 bits (31), Expect = 4.5, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = +1 Query: 52 SECLTGD 58 ++C+TGD Sbjct: 637 AQCITGD 657 Score = 15.8 bits (29), Expect = 6.8, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 15/26 (57%) Frame = +1 Query: 16 GDFLMVGFEELATGHDHVALVYGDIS 41 G+F+ LAT V+LV G++S Sbjct: 2662 GNFMTRMTAILATLFFIVSLVLGNMS 2739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIBB_ECOLI P0A7J0 3,4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (4.1.99.12) (217 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 10/17 (58%) Frame = +1 Query: 58 TIRHGSGIVCLCITEDR 74 T+RH C++++R Sbjct: 1231 TLRHRLATSAACVSKNR 1281 Score = 16.2 bits (30), Expect = 6.0, Method: Compositional matrix adjust. Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 2/58 (3%) Frame = +1 Query: 152 GHTEATIDLMTLAGFKPA--GVLCELTNDDGTMARAPECIEFANKHNMALVTIEDLVA 207 G EAT +L L+ KP+ L+ DD T +F K ++++ VA Sbjct: 70 GLKEATGNLERLSMIKPSVGDNFILLSGDDAT------GFDFIQKGGQGIISVTANVA 225 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIBD_ECOLI P25539 Riboflavin biosynthesis protein ribD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) (DRAP deaminase) (3.5.4.26) (Riboflavin-specific deaminase) (5-amino-6-(5-phosphoribosylamino)uracil reductase) (1.1.1.193) (HTP reductase) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 15/24 (62%) Frame = +2 Query: 275 HKGHLDLVVLMMQLGKQQINSIWV 298 H+G L L + ++ +QQI+ W+ Sbjct: 6692 HQGMLRLHQCVHEVLRQQISWFWL 6763 Score = 16.5 bits (31), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -2 Query: 74 PCSHHGRT 81 PC + GRT Sbjct: 6615 PCRNFGRT 6592 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIBF_ECOLI P0AG40 Riboflavin biosynthesis protein ribF (Riboflavin kinase) (2.7.1.26) (Flavokinase) (FMN adenylyltransferase) (2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase) (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 18 CVLTIGN 24 C+LTIG+ Sbjct: 904 CILTIGD 884 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 39 LQEEGRKRNL 48 L +GR RNL Sbjct: 4028 LSNDGRSRNL 3999 Score = 16.5 bits (31), Expect = 7.4, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 16/24 (66%) Frame = -3 Query: 47 NLPVMVMLFEPQPLELFATDKAPA 70 N+ V+ ++ P+PL+ ++APA Sbjct: 2693 NIAVIRVIKLPEPLDPNRVEEAPA 2622 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIHA_ECOLI P41409 Pyrimidine-specific ribonucleoside hydrolase rihA (3.2.-.-) (Cytidine/uridine-specific hydrolase) (311 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIHB_ECOLI P33022 Pyrimidine-specific ribonucleoside hydrolase rihB (3.2.2.8) (Cytidine/uridine-specific hydrolase) (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -1 Query: 57 LEINVPVYAGMPQPIMR 73 L +P YA + QP+ R Sbjct: 5995 LHFLLPFYALLQQPVSR 5945 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 12/42 (28%), Positives = 17/42 (40%) Frame = -1 Query: 152 GAYGTGNFTPSAEFNIFADPEAARVVFTSGVPLVMMGLDLTN 193 G+Y N+ + FNI D G V++ L TN Sbjct: 4192 GSYAVKNYRFNLVFNISRDFRFG------GNRRVLLSLFFTN 4085 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIHC_ECOLI P22564 Non-specific ribonucleoside hydrolase rihC (3.2.-.-) (Purine/pyrimidine ribonucleoside hydrolase) (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 10/12 (83%) Frame = -2 Query: 176 VFRSGIEIVMCG 187 +F+SG+ ++CG Sbjct: 3819 IFKSGVPGLLCG 3784 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 12/24 (50%) Frame = -2 Query: 51 QLLHFWNAEIPLAQGAAVPLVRAP 74 +L++ W +PL+R+P Sbjct: 4467 RLINNWGPRASGRISYKIPLMRSP 4396 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 16/49 (32%), Positives = 18/49 (36%), Gaps = 11/49 (22%) Frame = -2 Query: 239 AWLV------RPDLFTLKPCF-----VAVETQGEFTSGTTVVDIDGCLG 276 AWL P FT+ CF +A G FTS I LG Sbjct: 6231 AWLSFAFTANSPRFFTI--CF*LGEFIAFFLFGSFTSPAATTAISFNLG 6091 Score = 16.2 bits (30), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 136 CPECKPYI 143 CPEC +I Sbjct: 5098 CPECTDHI 5121 Score = 16.2 bits (30), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -3 Query: 33 MTTVAGNVS 41 +TTV+GN S Sbjct: 44 LTTVSGNKS 18 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -2 Query: 156 GNCTPNAE 163 G+C PNA Sbjct: 1380 GSCAPNAS 1357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIMI_ECOLI P0A944 Ribosomal-protein-alanine acetyltransferase (2.3.1.128) (Acetylating enzyme for N-terminal of ribosomal protein S18) (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.022 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.022, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 1/33 (3%) Frame = +2 Query: 51 MAAFAITQVVLDE-ATLFNIAVDPDYQRQGLGR 82 MA + +V+DE A NIAV+ Q +GR Sbjct: 4733 MAPAEVASIVVDEDAKTMNIAVEEGNSAQAIGR 4831 Score = 18.5 bits (36), Expect = 0.71, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 2/21 (9%) Frame = -1 Query: 90 DELEKRGV--ATLWLEVRASN 108 D+L+ R + ATLWL + + Sbjct: 5437 DQLKLRSLLPATLWLHLSCCS 5375 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -1 Query: 128 NYYPTTDGRE 137 +++PTT+G E Sbjct: 4033 DHFPTTEGLE 4004 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 16/33 (48%) Frame = +1 Query: 7 LETTDLPAAYHIEQRAHAFPWSEKTFASNQGER 39 +E TD YH+ HA ++ A +G+R Sbjct: 6025 IELTD----YHVTTSQHARAAEDENDAKVEGDR 6111 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIMJ_ECOLI P0A948 Ribosomal-protein-alanine acetyltransferase (2.3.1.128) (Acetylating enzyme for N-terminal of ribosomal protein S5) (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.33, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +2 Query: 57 SGWQARLGMINEFHKQGSA 75 SGW+ + INE ++ A Sbjct: 4865 SGWELNVMTINELKEKCQA 4921 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 8/38 (21%) Frame = -3 Query: 9 PKVRLTTDR--------LVVRLVHDRDAWRLADYYAEN 38 PK RLT V++L D R+ + A N Sbjct: 2729 PKTRLTIKNNVANIAVIRVIKLPEPLDPNRVEEAPAPN 2616 Score = 15.4 bits (28), Expect = 8.6, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = -1 Query: 40 HFLKPWEPV 48 HF + EP+ Sbjct: 2914 HFFRSLEPI 2888 Score = 15.4 bits (28), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 6/12 (50%) Frame = +2 Query: 20 VRLVHDRDAWRL 31 VRLV W L Sbjct: 4844 VRLVSQLSGWEL 4879 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIMK_ECOLI P0C0U4 Ribosomal protein S6 modification protein (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIML_ECOLI P13857 Ribosomal-protein-serine acetyltransferase (2.3.1.-) (Acetylating enzyme for N-terminal of ribosomal protein L7/L12) (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.4, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%) Frame = +3 Query: 21 VKPLYQLIC-KNKTWLQQSLNWPQF 44 +KP+ +LIC N L +S PQF Sbjct: 4920 LKPVQRLICLSNILKLMKS--APQF 4988 Score = 16.2 bits (30), Expect = 5.0, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 106 GQGIIS 111 GQGIIS Sbjct: 190 GQGIIS 207 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIMM_ECOLI P0A7X6 Ribosome maturation factor rimM (21K) (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.42, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +2 Query: 3 KQLTAQAPVDPIVLGK 18 KQL + P+ P+VL K Sbjct: 722 KQLDIRPPIQPLVLLK 769 Score = 16.5 bits (31), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = -1 Query: 175 EVDWDPG 181 VDW PG Sbjct: 3469 SVDWRPG 3449 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIMN_ECOLI P45748 Putative ribosome maturation factor rimN (190 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = -1 Query: 25 YPTEAVFGVGC 35 +PT GV C Sbjct: 2773 FPTHCFDGVAC 2741 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIMO_ECOLI P0AEI4 Ribosomal protein S12 methylthiotransferase rimO (S12 methylthiotransferase) (S12 MTTase) (2.-.-.-) (Ribosome maturation factor rimO) (441 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIMP_ECOLI P0A8A8 Ribosome maturation factor rimP (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 238 6e-67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 238 bits (607), Expect = 6e-67, Method: Compositional matrix adjust. Identities = 114/152 (75%), Positives = 133/152 (87%) Frame = +3 Query: 1 MGLSTLEQKLTEMITAPVEALGFELVGIEFIRGRTSTLRIYIDSEDGINVDDCADVSHQV 60 + LSTLEQKLTE+I+APV+ALG +LVG+EFI GR STLRIYID+ DG+ VD CADVS+QV Sbjct: 3357 VSLSTLEQKLTEIISAPVKALGHKLVGVEFIPGRQSTLRIYIDNCDGVTVDMCADVSYQV 3536 Query: 61 SAVLDVEDPITVAYNLEVSSPGLDRPLFTAEHYARFVGEEVTLVLRMAVQNRRKWQGVIK 120 SAVLDVE+PIT YNLEVSSPGL+R LFTAE Y ++GE + L LR+A+QNRRKWQG+IK Sbjct: 3537 SAVLDVEEPITCPYNLEVSSPGLERLLFTAEDYTDYLGERINLTLRIAMQNRRKWQGIIK 3716 Query: 121 AVDGEMITVTVEGKDEVFALSNIQKANLVPHF 152 AVDGEMI VTV+GKDEVFALSNI+KAN PHF Sbjct: 3717 AVDGEMIIVTVDGKDEVFALSNIRKANRAPHF 3812 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIR1_ECOLI P00452 Ribonucleoside-diphosphate reductase 1 subunit alpha (1.17.4.1) (Ribonucleoside-diphosphate reductase 1 R1 subunit) (Ribonucleotide reductase 1) (Protein B1) (761 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect(2) = 1.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -2 Query: 535 SANNLTHKTF 544 +ANN++HKT Sbjct: 561 AANNISHKTL 532 Score = 17.3 bits (33), Expect(2) = 1.7, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 10/12 (83%) Frame = -1 Query: 489 LDALLDYQDYPI 500 + ++L +QDYP+ Sbjct: 685 VSSML*WQDYPL 650 Score = 18.1 bits (35), Expect = 5.9, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -3 Query: 309 WHLEVESLLVLKNNRGVEG 327 W L + L+L+ + VEG Sbjct: 3944 WSLSLMQFLMLQKSSHVEG 3888 Score = 18.1 bits (35), Expect = 6.9, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 15/32 (46%) Frame = -3 Query: 228 IECGDSLDSINATSSAIVKYVSQRAGIGINAG 259 I CG + S T + I + RA I +NA Sbjct: 6797 IVCGMTPSSAATTKTTISVA*APRARIDVNAA 6702 Score = 17.7 bits (34), Expect = 8.9, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 13/21 (61%) Frame = +2 Query: 461 LCTLSAFNLGAINNLDELEEL 481 +CTL +++L ++EEL Sbjct: 5228 VCTLEDLAEQGVSDLADIEEL 5290 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIR2_ECOLI P69924 Ribonucleoside-diphosphate reductase 1 subunit beta (1.17.4.1) (Ribonucleotide reductase 1) (Protein B2) (Protein R2) (376 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = -1 Query: 241 LHLTGTQHMLNLLRSGADDPEMA 263 LHL+ +L LLR A ++A Sbjct: 5395 LHLSCCSFLLQLLRIIAKPADIA 5327 Score = 17.7 bits (34), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +2 Query: 271 QECYDLFVQA 280 Q C DL VQA Sbjct: 2636 QLCLDLVVQA 2665 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 16/33 (48%) Frame = -3 Query: 330 SNPIPWINTWLVSDNVQVAPQEVEVSSYLVGQI 362 S P+P NT ++++ + +Y+V I Sbjct: 2603 SAPLPCCNTISAISPIEISKKNTSSVTYIVVPI 2505 Score = 16.5 bits (31), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -2 Query: 211 VSFACSFAFA 220 VSF C+F F Sbjct: 5793 VSFLCTFTFC 5764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIR3_ECOLI P39452 Ribonucleoside-diphosphate reductase 2 subunit alpha (1.17.4.1) (Ribonucleotide reductase 2) (R1E protein) (714 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -3 Query: 584 QAVPPTGSIS 593 +A+PP GS+S Sbjct: 2975 RALPPQGSVS 2946 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RIR4_ECOLI P37146 Ribonucleoside-diphosphate reductase 2 subunit beta (1.17.4.1) (Ribonucleotide reductase 2) (R2F protein) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -1 Query: 159 SFLFYSGFWLPMYFSSR 175 F+FY ++P+YF R Sbjct: 5656 KFVFYEFQFVPIYFFHR 5606 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RISA_ECOLI P0AFU8 Riboflavin synthase alpha chain (2.5.1.9) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.67, Method: Compositional matrix adjust. Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 2/50 (4%) Frame = +2 Query: 165 TLERTTLGKKKLGARVNIEIDPQTQ--AVVDTVERVLAARENAMNQPGTE 212 +L TLG++K+ ++ P+ + AVV E L R+ A+N P + Sbjct: 6047 SLPHNTLGQQKM------KMMPRLKEIAVVAAGEVKLPNRKKAINSPSQK 6178 Score = 18.9 bits (37), Expect = 0.86, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +1 Query: 5 IVQGTAKLVSIDEKPNF 21 + +G AK V E PN+ Sbjct: 1624 LYRGKAKTVYTTEDPNY 1674 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +1 Query: 154 PTRFCVHLIPETLER 168 P+R L+PET+ R Sbjct: 1 PSRTGCDLLPETVVR 45 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RISB_ECOLI P61714 6,7-dimethyl-8-ribityllumazine synthase (DMRL synthase) (Lumazine synthase) (2.5.1.9) (Riboflavin synthase beta chain) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -1 Query: 84 RGGTAHF 90 GG+ HF Sbjct: 5881 HGGSCHF 5861 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL10_ECOLI P0A7J3 50S ribosomal protein L10 (50S ribosomal protein L8) (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL11_ECOLI P0A7J7 50S ribosomal protein L11 (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL13_ECOLI P0AA10 50S ribosomal protein L13 (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -2 Query: 65 TGNKRTDKVYYHHTGH 80 T NK+ + Y HTGH Sbjct: 2718 TNNKK*CRQYSGHTGH 2671 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL14_ECOLI P0ADY3 50S ribosomal protein L14 (123 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.3, Method: Composition-based stats. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -3 Query: 48 PRGKVKKGDVLKAVVVRTKK 67 P+G KKG + ++ KK Sbjct: 3356 PQGIKKKGLIAQSFFSNNKK 3297 Score = 16.2 bits (30), Expect = 3.5, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 20 MCIKVLG 26 +C KVLG Sbjct: 6245 LCCKVLG 6225 Score = 15.8 bits (29), Expect = 4.6, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -1 Query: 84 CVLLNNN 90 CV +NN+ Sbjct: 4777 CVFVNND 4757 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL15_ECOLI P02413 50S ribosomal protein L15 (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 3 LNTLSPAEGSKK 14 ++ +SP E SKK Sbjct: 2576 ISAISPIEISKK 2541 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL16_ECOLI P0ADY7 50S ribosomal protein L16 (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 116 AFKLAAA 122 AFKLAA Sbjct: 5204 AFKLAAC 5224 Score = 15.0 bits (27), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +2 Query: 52 AMTRAVKRQGKIWIRV 67 A+ +KR+ K WI++ Sbjct: 2195 AVACGIKRR*KRWIKI 2242 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL17_ECOLI P0AG44 50S ribosomal protein L17 (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL18_ECOLI P0C018 50S ribosomal protein L18 (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL19_ECOLI P0A7K6 50S ribosomal protein L19 (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.30, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 10/10 (100%) Frame = -3 Query: 13 MKQDVPSFRP 22 ++QD+P++RP Sbjct: 5255 VRQDLPAYRP 5226 Score = 14.6 bits (26), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +2 Query: 61 VRKISNGEGVERV 73 V+ +SN G ER+ Sbjct: 4646 VQAVSNELGGERI 4684 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL1_ECOLI P0A7L0 50S ribosomal protein L1 (234 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.11, Method: Compositional matrix adjust. Identities = 16/63 (25%), Positives = 28/63 (44%) Frame = -1 Query: 6 KRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATVL 65 + +R +R V A + + ALL++ ++ + S + L QNV +L Sbjct: 6037 RSIRFVRLWVQAIYLHFLLPFYALLQQ-PVSRLLLSYGALLVL--------QNVSVQPLL 5885 Query: 66 PHG 68 PHG Sbjct: 5884 PHG 5876 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL20_ECOLI P0A7L3 50S ribosomal protein L20 (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL21_ECOLI P0AG48 50S ribosomal protein L21 (103 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL22_ECOLI P61175 50S ribosomal protein L22 (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL23_ECOLI P0ADZ0 50S ribosomal protein L23 (100 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL24_ECOLI P60624 50S ribosomal protein L24 (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL25_ECOLI P68919 50S ribosomal protein L25 (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.8, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 11 EQGKGA 16 +QGKGA Sbjct: 2584 QQGKGA 2601 Score = 15.4 bits (28), Expect = 4.1, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = -1 Query: 74 AQDVQRHPYKPKL 86 +Q++ HP P+L Sbjct: 3859 SQNLFVHPKLPRL 3821 Score = 15.0 bits (27), Expect = 5.0, Method: Compositional matrix adjust. Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 2/42 (4%) Frame = +1 Query: 3 TINAEVRKEQGKGASRRLRAANKFPAIIYGGKEAPLA--IEL 42 ++ EVR++ + A R A K A G P+A IEL Sbjct: 5908 SVEREVRRKIEEDAKRVAEEARKMAAENEGKWPEPIAEQIEL 6033 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL27_ECOLI P0A7L8 50S ribosomal protein L27 (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.9, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 6/14 (42%) Frame = +3 Query: 45 FHAGANVGCGRDHT 58 FH CG HT Sbjct: 1770 FHYEPT*SCGYPHT 1811 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL28_ECOLI P0A7M2 50S ribosomal protein L28 (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.3, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +2 Query: 13 VTGNNRSHALNATKRRF 29 V G+N +HA + K F Sbjct: 3119 VAGSNPAHATTSRKIFF 3169 Score = 16.5 bits (31), Expect = 1.4, Method: Composition-based stats. Identities = 10/33 (30%), Positives = 15/33 (45%) Frame = -2 Query: 6 QVTGKRPVTGNNRSHALNATKRRFLPNLHSHRF 38 Q G RP++ +R AL R + H H + Sbjct: 3606 QDLGMRPLSCRDR*SALQHLARHSPGS*HLHTY 3508 Score = 16.2 bits (30), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +3 Query: 41 ESEKRFVTLRVSAKG 55 ++EKR TLRV ++ Sbjct: 6141 QTEKRQ*TLRVKSRS 6185 Score = 15.4 bits (28), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +3 Query: 27 RRFLPNLHS 35 R F PNL S Sbjct: 4113 RLFPPNLKS 4139 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL29_ECOLI P0A7M6 50S ribosomal protein L29 (63 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL2_ECOLI P60422 50S ribosomal protein L2 (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -3 Query: 12 GRRHVVKVVNPE 23 G+R V V+NP Sbjct: 404 GKRKVSAVINPS 369 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +1 Query: 73 GIPAVVERLEYD 84 GIP +ERL D Sbjct: 1798 GIPTQMERLLSD 1833 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL30_ECOLI P0AG51 50S ribosomal protein L30 (59 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -2 Query: 11 RSAIGRL 17 RSA+GRL Sbjct: 894 RSAMGRL 874 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL31B_ECOLI P0A7N1 50S ribosomal protein L31 type B (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL31_ECOLI P0A7M9 50S ribosomal protein L31 (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.7, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -1 Query: 59 RFNKRFNI 66 RFN FNI Sbjct: 4168 RFNLVFNI 4145 Score = 15.4 bits (28), Expect = 2.9, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = -1 Query: 40 CHPFFTG 46 CH FTG Sbjct: 5323 CHN*FTG 5303 Score = 13.5 bits (23), Expect = 8.9, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +3 Query: 19 GNVMKIRST 27 GN+M RST Sbjct: 4872 GNLM**RST 4898 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL32_ECOLI P0A7N4 50S ribosomal protein L32 (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL33_ECOLI P0A7N9 50S ribosomal protein L33 (55 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.041 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.041, Method: Composition-based stats. Identities = 11/26 (42%), Positives = 14/26 (53%) Frame = -1 Query: 19 HFYTTTKNKRTKPEKLELKKFDPVVR 44 HF+ TKN PE L + DP+ R Sbjct: 3319 HFFQITKN----PETRGLIQLDPIRR 3254 Score = 13.1 bits (22), Expect = 9.0, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +3 Query: 26 NKRTKPEKLELKK 38 NK+ K +L LKK Sbjct: 4266 NKKGKLLQLPLKK 4304 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL34_ECOLI P0A7P5 50S ribosomal protein L34 (46 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 4.4, Method: Composition-based stats. Identities = 7/20 (35%), Positives = 9/20 (45%) Frame = +1 Query: 12 RNRSHGFRARMATKNGRQVL 31 RNR+ G + QVL Sbjct: 1885 RNRTAGSLVKRLGITENQVL 1944 Score = 13.5 bits (23), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +1 Query: 7 PSVLKRNRS 15 PSV NRS Sbjct: 4558 PSVTC*NRS 4584 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL35_ECOLI P0A7Q1 50S ribosomal protein L35 (Ribosomal protein A) (65 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL362_ECOLI Q2EEQ2 50S ribosomal protein L36 2 (46 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.5 bits (23), Expect = 5.0, Method: Composition-based stats. Identities = 8/26 (30%), Positives = 12/26 (46%) Frame = +1 Query: 21 KRKGRLYVICKSNPRFKAVQGRKKKR 46 ++KG K++ GRK KR Sbjct: 6145 QKKGNKLSESKADREEARAVGRKSKR 6222 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL36_ECOLI P0A7Q6 50S ribosomal protein L36 (Ribosomal protein B) (38 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 1.5, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 11/16 (68%) Frame = +3 Query: 15 KIVKRDGVIRVICSAE 30 K+ VIR++C+++ Sbjct: 951 KMSPLQAVIRLVCNSK 998 Score = 14.6 bits (26), Expect = 2.3, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +3 Query: 4 RASVKKLCRN 13 + SVK LC++ Sbjct: 4026 KWSVKWLCQH 4055 Score = 13.5 bits (23), Expect = 6.2, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = -2 Query: 25 VICSAEPKHKQRQG 38 V C+ P H+ +G Sbjct: 1935 VFCNP*PLHQ*TRG 1894 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL3_ECOLI P60438 50S ribosomal protein L3 (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL4_ECOLI P60723 50S ribosomal protein L4 (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +2 Query: 98 KKMYRGALKSILS 110 K +YR + + ILS Sbjct: 3215 KNIYRKSCRGILS 3253 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL5_ECOLI P62399 50S ribosomal protein L5 (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.42, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 12/17 (70%) Frame = -3 Query: 76 GFKIRQGYPIGCKVTLR 92 G+K++Q YP+ V LR Sbjct: 1337 GYKLQQCYPVVGHV*LR 1287 Score = 18.5 bits (36), Expect = 0.91, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +2 Query: 84 PIGCKVTLRGERM 96 PIG V +RG R+ Sbjct: 4610 PIGACVGMRGARV 4648 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +3 Query: 111 IRDFRGLSAKS 121 +RD+R SAKS Sbjct: 1917 VRDYRKPSAKS 1949 Score = 16.2 bits (30), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 16/28 (57%), Gaps = 1/28 (3%) Frame = +2 Query: 126 GNYSMGV-REQIIFPEIDYDKVDRVRGL 152 GN + G+ ++ + P + DR+RG+ Sbjct: 4334 GNNAEGIIGQEDMLPRENIRPGDRIRGI 4417 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL6_ECOLI P0AG55 50S ribosomal protein L6 (177 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +1 Query: 23 VITIKGKNG 31 VIT+ G+N Sbjct: 5356 VITVAGRNS 5382 Score = 15.8 bits (29), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -3 Query: 111 HPVDHQLPA 119 HPV LPA Sbjct: 5261 HPVRQDLPA 5235 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL7_ECOLI P0A7K2 50S ribosomal protein L7/L12 (L8) (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RL9_ECOLI P0A7R1 50S ribosomal protein L9 (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLMB_ECOLI P63177 23S rRNA (guanosine-2'-O-)-methyltransferase rlmB (2.1.1.-) (23S rRNA Gm2251 2'-O-methyltransferase) (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = -1 Query: 92 LDQPFLLILDGVTDPHN 108 +D P L+ G P+N Sbjct: 1720 VDHPLLMYRYGTPAPNN 1670 Score = 15.8 bits (29), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 178 ADHTLYQSKMTGRLAL 193 ADH +++ G LAL Sbjct: 1984 ADHFSKTAQIMGDLAL 1937 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLMF_ECOLI P75782 Ribosomal RNA large subunit methyltransferase F (2.1.1.48) (23S rRNA mA1618 methyltransferase) (rRNA adenine N-6-methyltransferase) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.3, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 16/33 (48%) Frame = -1 Query: 88 HHLADLLAEASGTIPANASILDIGVGANCIYPL 120 HH + L++ T A DI +G+ YP+ Sbjct: 1021 HH*SKLISLLLHTNLITACKGDIFIGSVPFYPI 923 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLMG_ECOLI P42596 Ribosomal RNA large subunit methyltransferase G (2.1.1.52) (rRNA (guanine-N(2)-)-methyltransferase rlmG) (23S rRNA m2G1835 methyltransferase) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.0, Method: Compositional matrix adjust. Identities = 12/38 (31%), Positives = 17/38 (44%) Frame = -1 Query: 341 NRHLDYFHKLKKIFGNCTTIATNNKFVVLKAVKLGRRR 378 N D+F + + +C +I N F L LGR R Sbjct: 4045 NHFTDHFPTTEGLEISCFSIDINPDFNFLFMFFLGRCR 3932 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 11/24 (45%) Frame = +1 Query: 283 CEFMINNALSGVEPFRFNAVLCNP 306 C+ + L +EP R LC P Sbjct: 901 CKSNAHYRLDKMEPSR*RCPLCRP 972 Score = 17.3 bits (33), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 1 MSHLDNGFRSL 11 M H+D+G SL Sbjct: 6547 MGHVDHGKTSL 6579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLMH_ECOLI P0A8I8 Ribosomal RNA large subunit methyltransferase H (2.1.1.-) (rRNA (pseudouridine-N3-)-methyltransferase rlmH) (23S rRNA m3Psi1915 methyltransferase) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLMI_ECOLI P75876 Ribosomal RNA large subunit methyltransferase I (2.1.1.-) (rRNA (cytosine-C(5)-)-methyltransferase rlmI) (23S rRNA m5C1962 methyltransferase) (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 8/22 (36%) Frame = -3 Query: 45 HQGKWLARGAYSPASQIRARVW 66 HQG AY P R + Sbjct: 4400 HQGVCFHEAAYPPVQLFLRRYY 4335 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = +2 Query: 366 FIEQFRQAADHPVIATY 382 IEQFR+ V AT Sbjct: 4247 VIEQFREQEGKIVTATV 4297 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLML_ECOLI P75864 Ribosomal RNA large subunit methyltransferase L (2.1.1.52) (rRNA (guanine-N(2)-)-methyltransferase rlmL) (23S rRNA m2G2445 methyltransferase) (702 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 14/26 (53%) Frame = -3 Query: 147 TASIALDLSGDGLHLRGYRDRAGIAP 172 A+I ++GD + + + G+AP Sbjct: 3530 VANICTHINGDAIAVIDINTQCGLAP 3453 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLMN_ECOLI P36979 Ribosomal RNA large subunit methyltransferase N (2.1.1.-) (23S rRNA m2A2503 methyltransferase) (384 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/35 (22%), Positives = 18/35 (51%) Frame = -2 Query: 142 NLRVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMM 176 +L + I + WR A + + +T P+T + ++ Sbjct: 2850 SLSLRNIAARFWRRAYFLIFSWLTQIFPLTALTVL 2746 Score = 16.9 bits (32), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = -3 Query: 126 ALECKFCSTAQ 136 ALE FC Q Sbjct: 5087 ALEASFCQNYQ 5055 Score = 16.5 bits (31), Expect = 8.3, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 10/24 (41%) Frame = -2 Query: 108 YIPEDDRATLCVSSQVGCALECKF 131 + +R T CVS + C F Sbjct: 5844 FFLFYNRLTFCVSDFFRVSFLCTF 5773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLPA_ECOLI P10100 Rare lipoprotein A (Precursor) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/29 (24%), Positives = 14/29 (48%) Frame = +3 Query: 2 RKQWLGICIAAGMLAACTSDDGQQQTVSV 30 R++W GI A + DG+ + ++ Sbjct: 3690 RRKWQGIIKAVDGEMIIVTVDGKDEVFAL 3776 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLUA_ECOLI P0AA37 Ribosomal large subunit pseudouridine synthase A (5.4.99.-) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.27, Method: Compositional matrix adjust. Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%) Frame = +2 Query: 61 HRLDMATSGVIVVALTKAAERELK-RQFREREPK 93 R+ T+ ++V + AER + QFRE+E K Sbjct: 4178 DRITTQTAKQVIVQKVREAERAVVIEQFREQEGK 4279 Score = 19.2 bits (38), Expect = 0.77, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 17/41 (41%) Frame = -3 Query: 148 NTARVVLKPITGRSHQLRVHMLALGHPILGDRFYASPEARA 188 ++A V + P+ +L L +LG P ARA Sbjct: 6314 SSATVTVSPMITSRLTTATGLLKLCCKVLGFLLLLRPTARA 6192 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLUB_ECOLI P37765 Ribosomal large subunit pseudouridine synthase B (5.4.99.-) (rRNA-uridine isomerase B) (rRNA pseudouridylate synthase B) (291 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +3 Query: 179 GINQWYNVTLTE 190 GIN N+TLT+ Sbjct: 372 GINNSRNLTLTD 407 Score = 16.2 bits (30), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +2 Query: 238 NYLRELVELP 247 NYL + ++LP Sbjct: 320 NYLSKPIQLP 349 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLUC_ECOLI P0AA39 Ribosomal large subunit pseudouridine synthase C (5.4.99.-) (rRNA-uridine isomerase C) (rRNA pseudouridylate synthase C) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 15/30 (50%) Frame = +2 Query: 12 AITADEAGQRIDNFLRTQLKGVPKSMIYRI 41 ++ ++G+ I + QLK MIY + Sbjct: 6908 TVSCQKSGEEIPHLFTYQLKREQGLMIYSM 6997 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLUD_ECOLI P33643 Ribosomal large subunit pseudouridine synthase D (5.4.99.-) (rRNA-uridine isomerase D) (rRNA pseudouridylate synthase D) (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +2 Query: 318 EHKDEVDWL 326 EHK+ ++WL Sbjct: 2870 EHKEILNWL 2896 Score = 16.2 bits (30), Expect = 9.8, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 15/28 (53%) Frame = +3 Query: 268 ISTLRKFDRQALHATMLRLYHPISGIEM 295 +STL + + + A + L H + G+E Sbjct: 3363 LSTLEQKLTEIISAPVKALGHKLVGVEF 3446 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLUE_ECOLI P75966 Ribosomal large subunit pseudouridine synthase E (5.4.99.-) (rRNA-uridine isomerase E) (rRNA pseudouridylate synthase E) (217 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -2 Query: 50 VLPQFTDEAGRKT 62 V+P F + GR+ Sbjct: 1287 VIPIFANAGGRRC 1249 Score = 16.5 bits (31), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -2 Query: 202 YSLDNLANGEWREVT 216 Y +DN NG++R + Sbjct: 6858 YFVDNNDNGDFRCFS 6814 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RLUF_ECOLI P32684 Ribosomal large subunit pseudouridine synthase F (5.4.99.-) (rRNA-uridine isomerase F) (rRNA pseudouridylate synthase F) (290 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 110 SQGLIFLTNHG 120 SQG+I HG Sbjct: 647 SQGIILPLQHG 679 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 275 SNGKRFTS 282 SNG RFT+ Sbjct: 6309 SNGDRFTN 6286 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = -1 Query: 155 AGVPILGTVTKKCK 168 G ILGT+T+ K Sbjct: 5119 CGQYILGTITQLLK 5078 Score = 16.2 bits (30), Expect = 8.6, Method: Compositional matrix adjust. Identities = 7/29 (24%), Positives = 14/29 (48%) Frame = -3 Query: 168 KVKKEAPFVFRITLVQGLNRQIRRMCEHF 196 K+K++ F+F + + R + HF Sbjct: 1568 KIKEDHRFLFILHHFDSMQRVAPQPAHHF 1482 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RMF_ECOLI P0AFW2 Ribosome modulation factor (Protein E) (55 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RMLA1_ECOLI P37744 Glucose-1-phosphate thymidylyltransferase 1 (G1P-TT 1) (2.7.7.24) (dTDP-glucose synthase 1) (dTDP-glucose pyrophosphorylase 1) (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.24 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.24, Method: Compositional matrix adjust. Identities = 13/41 (31%), Positives = 22/41 (53%) Frame = +1 Query: 118 DLPKLMEAAVNKESGATVFAYHVNDPERYGVVEFDKNGTAI 158 DL K + + ++S + V++PE G + F+KN AI Sbjct: 3208 DLKKHLSEVMPRDSFSGE*GPVVSNPEFRGFLLFEKNDWAI 3330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RMLA2_ECOLI P61887 Glucose-1-phosphate thymidylyltransferase 2 (G1P-TT 2) (2.7.7.24) (dTDP-glucose synthase 2) (dTDP-glucose pyrophosphorylase 2) (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RMUC_ECOLI P0AG71 DNA recombination protein rmuC (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.21, Method: Compositional matrix adjust. Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 1/37 (2%) Frame = -2 Query: 371 IADRASKLYDKMRLFIDDMSAIGQSLDKAQDN-YRQA 406 IA +A ++ RLFI +AIG L D ++QA Sbjct: 2256 IATKAIFIHLF*RLFIPQATAIGGKLITQGDFIFKQA 2146 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 12/18 (66%) Frame = +1 Query: 367 NAQQIADRASKLYDKMRL 384 N + +AD S+L+D+ L Sbjct: 529 NKRFVADVVSRLFDRTTL 582 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNB_ECOLI P30850 Exoribonuclease 2 (3.1.13.1) (Exoribonuclease II) (Ribonuclease II) (RNase II) (644 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -1 Query: 588 FIPAPFLHAVRDELVCS 604 F+P F H + L CS Sbjct: 5632 FVPIYFFHRSSEHLKCS 5582 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNC_ECOLI P0A7Y0 Ribonuclease 3 (3.1.26.3) (Ribonuclease III) (RNase III) (226 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.85, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 2/24 (8%) Frame = -1 Query: 179 VRGEAHDQEFT--IHCQVSGLSEP 200 V+ + H + F I CQ L+EP Sbjct: 2374 VQAQFHLKSFYSLIRCQKRALTEP 2303 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RND_ECOLI P09155 Ribonuclease D (RNase D) (3.1.13.5) (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 10/13 (76%) Frame = +2 Query: 292 QPMLNLMDMPGYR 304 +PM L+++ G+R Sbjct: 2273 KPMSKLLNVSGFR 2311 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +2 Query: 334 INQLLNWHWKLKP 346 + Q ++W W L+P Sbjct: 6734 LRQQISWFWLLRP 6772 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNE_ECOLI P21513 Ribonuclease E (RNase E) (3.1.26.12) (1061 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = -3 Query: 755 VQEAPAPRTELVKVPLPVV 773 V+EAPAP + PLP Sbjct: 2639 VEEAPAPNEAPISAPLPCC 2583 Score = 19.6 bits (39), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +1 Query: 335 RLRDLGGLIVIDF 347 +L D GLI++DF Sbjct: 2095 KLFDDAGLILVDF 2133 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNFA_ECOLI P0A766 Electron transport complex protein rnfA (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/31 (22%), Positives = 13/31 (41%) Frame = -3 Query: 101 RLLGIFLPLITTNCAVLGVALLNINLGHNFL 131 L+ F + NC + + I+ NF+ Sbjct: 5489 ELVSDFFKPASANCCMRRSTEVEISAASNFM 5397 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNFB_ECOLI P77223 Electron transport complex protein rnfB (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 30 4e-04 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 30.0 bits (66), Expect = 4e-04, Method: Compositional matrix adjust. Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 8/79 (10%) Frame = -3 Query: 103 ITPARM--------VAVIDENNCIGCTKCIQACPVDAIVGATRAMHTVMSDLCTGCNLCV 154 I P+R+ +A I+ + C G + + + ATR +V+ T + Sbjct: 380 INPSRLQAHLTAIGLASINNSLCSGIKRSFKRPASVNLPSATR*QSSVIPPAATLAVTEI 201 Query: 155 DPCPTHCISLQPVAETPDS 173 PCP CI +PVA +P S Sbjct: 200 IPCPPFCIKSKPVASSPLS 144 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 12/18 (66%) Frame = +2 Query: 135 ATRAMHTVMSDLCTGCNL 152 A ++H+V++ + CNL Sbjct: 2384 AFVSIHSVLNSIEVVCNL 2437 Score = 15.4 bits (28), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -1 Query: 165 QPVAETPDS 173 QPVA PD Sbjct: 6424 QPVALFPDQ 6398 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNFC_ECOLI P77611 Electron transport complex protein rnfC (740 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNFD_ECOLI P76182 Electron transport complex protein rnfD (352 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 2/33 (6%) Frame = +1 Query: 290 PVTASTTNRGRLIFGAL--AGLLVWLIRSFGGY 320 P+T+ T + + AL AGLL L+ + GY Sbjct: 403 PMTSLTLVNQKRVEDALKSAGLLS*LLGKYNGY 501 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = +2 Query: 90 PPLAPWWMVVLGTVFAVIIA 109 PP +P W++++ +IA Sbjct: 6530 PPSSPSWVMLIMVRLHCLIA 6589 Score = 16.2 bits (30), Expect = 9.4, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -3 Query: 299 GRLIFGALAG 308 G LIF +LAG Sbjct: 2813 GALIFSSLAG 2784 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNFE_ECOLI P77179 Electron transport complex protein rnfE (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNFG_ECOLI P77285 Electron transport complex protein rnfG (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNG_ECOLI P0A9J0 Ribonuclease G (RNase G) (3.1.26.-) (Cytoplasmic axial filament protein) (489 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNH2_ECOLI P10442 Ribonuclease HII (RNase HII) (3.1.26.4) (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -1 Query: 6 YPHTQLVA 13 YPH LVA Sbjct: 2605 YPHLYLVA 2582 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNH_ECOLI P0A7Y4 Ribonuclease HI (RNase HI) (3.1.26.4) (Ribonuclease H) (RNase H) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNI_ECOLI P21338 Ribonuclease I (RNase I) (3.1.27.6) (Enterobacter ribonuclease) (Precursor) (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +3 Query: 141 GAGGRSCLERYEYAKHGAC 159 G+GG C R HG+C Sbjct: 6501 GSGG*ICFTRPRRHHHGSC 6557 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +1 Query: 125 TGLSLETAAKLSEVMP 140 T + + LSEVMP Sbjct: 3193 TDIDFDLKKHLSEVMP 3240 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%), Gaps = 3/18 (16%) Frame = -2 Query: 133 AKLSEVMP---GAGGRSC 147 ++L V+P AGGR C Sbjct: 1302 SRLVTVIPIFANAGGRRC 1249 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%) Frame = -1 Query: 252 PHPGNCGKTFVIDKAGY 268 PH G+C FV++ + + Sbjct: 5884 PHGGSC--HFVVESSIF 5840 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNK_ECOLI P0AFW4 Regulator of nucleoside diphosphate kinase (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNPA_ECOLI P0A7Y8 Ribonuclease P protein component (RNaseP protein) (RNase P protein) (3.1.26.5) (Protein C5) (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNPH_ECOLI P03842 Ribonuclease PH (RNase PH) (2.7.7.56) (tRNA nucleotidyltransferase) (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNR_ECOLI P21499 Ribonuclease R (RNase R) (3.1.-.-) (Protein vacB) (813 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -1 Query: 299 IADVSYYVRP 308 +A SYY+RP Sbjct: 2749 VACYSYYLRP 2720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNT_ECOLI P30014 Ribonuclease T (3.1.13.-) (Exoribonuclease T) (RNase T) (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RNZ_ECOLI P0A8V0 Ribonuclease Z (RNase Z) (3.1.26.11) (tRNase Z) (tRNA 3 endonuclease) (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.35 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.35, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 15/31 (48%) Frame = -2 Query: 48 LHTAFNPGKLDKIFISHLHGDHLFGLPGLLC 78 L TA ++ +S L G+PGLLC Sbjct: 3879 LETASTTARISLFILSCLV*IFKSGVPGLLC 3787 Score = 20.4 bits (41), Expect = 0.55, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +2 Query: 210 FGDTGPCDAALDLA 223 FGD P D L+LA Sbjct: 5144 FGDNKPADDLLNLA 5185 Score = 19.2 bits (38), Expect = 0.99, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 17/32 (53%) Frame = +1 Query: 184 ITLEDGRQINGADYLAAPVPGKALAIFGDTGP 215 I L+ G+ GAD A+ G + +FG +G Sbjct: 2575 IVLQQGK---GADMGASFGAGASSTLFGSSGS 2661 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 12/47 (25%), Positives = 18/47 (38%) Frame = -3 Query: 52 FNPGKLDKIFISHLHGDHLFGLPGLLCSRSMSGIIQPLTIYGPQGIR 98 NP +L +HL L + LCS +P ++ P R Sbjct: 380 INPSRLQ----AHLTAIGLASINNSLCSGIKRSFKRPASVNLPSATR 252 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 111 WTDYPLEIVE 120 W DYPL +E Sbjct: 667 WQDYPL*CIE 638 Score = 16.5 bits (31), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = -3 Query: 140 EHPLECYGYRI 150 HPL YRI Sbjct: 1421 NHPLATDSYRI 1389 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ROB_ECOLI P0ACI0 Right origin-binding protein (289 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -1 Query: 140 GVTQSYSCSLEQISDFRH 157 +T+ Y CS+ + F H Sbjct: 2848 SITEEYRCSVLEARLFSH 2795 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +1 Query: 42 FKDVTGHAIGAYIRAR 57 F D GHA +RAR Sbjct: 6682 FLDTPGHAAFTSMRAR 6729 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RODA_ECOLI P0ABG7 Rod shape-determining protein rodA (370 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RODZ_ECOLI P27434 Cytoskeleton protein rodZ (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ROF_ECOLI P0AFW8 Protein rof (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.049 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.049, Method: Composition-based stats. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +2 Query: 4 TYQPINCDDYDNL 16 TY PIN D+D L Sbjct: 1328 TYSPINSRDWDAL 1366 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RP32_ECOLI P0AGB3 RNA polymerase sigma-32 factor (Heat shock regulatory protein F33.4) (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RP54_ECOLI P24255 RNA polymerase sigma-54 factor (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 13/23 (56%) Frame = -3 Query: 285 WTVELNSDSIPRLQINQHYASMC 307 WT+ N +PR+++ ++C Sbjct: 788 WTLSGNPLIVPRVELVAECLTVC 720 Score = 17.7 bits (34), Expect = 4.6, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = -2 Query: 330 IKSLESRNDTLLRVSR 345 + LES N TLLR+ + Sbjct: 1467 VCPLESVNCTLLRLPK 1420 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 12/30 (40%), Positives = 14/30 (46%) Frame = -1 Query: 314 GDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 GD +RS L WL S S LLR+ Sbjct: 5440 GDQLKLRSLLPATLWLHLSCCSFLLQLLRI 5351 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RP5M_ECOLI P0AFX0 Probable sigma(54) modulation protein (ORF3) (ORF95) (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.3, Method: Composition-based stats. Identities = 11/39 (28%), Positives = 19/39 (48%) Frame = +3 Query: 18 EFVTAKFAKLEQYFDRINQVYVVLKVEKVTHTSDATLHV 56 EF+ + + L Y D + V V + + V++ A L V Sbjct: 3441 EFIPGRQSTLRIYIDNCDGVTVDMCAD-VSYQVSAVLDV 3554 Score = 14.2 bits (25), Expect = 8.1, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -1 Query: 59 GEIHAS 64 GE+HA+ Sbjct: 1450 GELHAT 1433 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPE_ECOLI P0AG07 Ribulose-phosphate 3-epimerase (5.1.3.1) (Pentose-5-phosphate 3-epimerase) (PPE) (R5P3E) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.38, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 15/36 (41%) Frame = +3 Query: 25 ALAAGADVVHFDVMDNHYVPNLTIGPMVLKSLRNYG 60 AL +V + H VPN + VLK N+ Sbjct: 4392 ALVTALEVFCMRYVLKHEVPNYLLAVHVLKC*LNFS 4499 Score = 18.9 bits (37), Expect = 0.94, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = +2 Query: 62 TAPIDVHLMVKPVDRIV 78 T P+ V L VKP+ +V Sbjct: 1988 TIPLSVRLTVKPLAGLV 2038 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPIA_ECOLI P0A7Z0 Ribose-5-phosphate isomerase A (5.3.1.6) (Phosphoriboisomerase A) (PRI) (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.66, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%) Frame = -1 Query: 16 QYVQPGTIVGVGTGSTAAHFIDALGT 41 Q++Q TIV + + HF L T Sbjct: 1108 QFIQHSTIVMLYLDIRSNHFFLLL*T 1031 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 13/25 (52%) Frame = +1 Query: 179 PIAMENAINAIPGVVTVGLFANRGA 203 P+A+ N I VTV AN+ A Sbjct: 6256 PVAVVNRDVIIGETVTVAELANKMA 6330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPIB_ECOLI P37351 Ribose-5-phosphate isomerase B (5.3.1.6) (Phosphoriboisomerase B) (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/25 (24%), Positives = 11/25 (44%) Frame = -1 Query: 25 ERGVEVIDKGTWSSERTDYPHYASQ 49 +RG+ ++ W PH+ Q Sbjct: 6838 QRGLSLL*HVGWPRSSVA*PHHRPQ 6764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPIR_ECOLI P0ACS7 HTH-type transcriptional regulator rpiR (Als operon repressor) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.65, Method: Compositional matrix adjust. Identities = 9/13 (69%), Positives = 9/13 (69%) Frame = +2 Query: 7 DSALPNGIGLAPY 19 DSALP I APY Sbjct: 1199 DSALPRLIVRAPY 1237 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = +2 Query: 67 VSKLLGFSGFR 77 +SKLL SGFR Sbjct: 2279 MSKLLNVSGFR 2311 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPOA_ECOLI P0A7Z4 DNA-directed RNA polymerase subunit alpha (RNAP subunit alpha) (2.7.7.6) (Transcriptase subunit alpha) (RNA polymerase subunit alpha) (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -2 Query: 110 VTAADITHDGD 120 +T ++THDGD Sbjct: 6570 LTMINMTHDGD 6538 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPOB_ECOLI P0A8V2 DNA-directed RNA polymerase subunit beta (RNAP subunit beta) (2.7.7.6) (Transcriptase subunit beta) (RNA polymerase subunit beta) (1342 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 9.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 9.0, Method: Compositional matrix adjust. Identities = 14/42 (33%), Positives = 20/42 (47%) Frame = +1 Query: 1035 KITQGDDLAPGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVI 1076 KIT GD+ +P + L K+ ++ DK R GVI Sbjct: 2161 KITLGDEFSPDGCR-----LWDKKTLEKMDKDRFRGNLGGVI 2271 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPOC_ECOLI P0A8T7 DNA-directed RNA polymerase subunit beta' (RNAP subunit beta') (2.7.7.6) (Transcriptase subunit beta') (RNA polymerase subunit beta') (1407 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPOD_ECOLI P00579 RNA polymerase sigma factor rpoD (Sigma-70) (613 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.89, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = -1 Query: 516 DSHLGDFIEDTTLELPLDSATTESL 540 ++HL + L+LP+D A + L Sbjct: 301 NAHLNGLLR*IYLQLPVDKAPSFHL 227 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPOE_ECOLI P0AGB6 RNA polymerase sigma-E factor (Sigma-24) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPOS_ECOLI P13445 RNA polymerase sigma factor rpoS (Sigma-38) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPOZ_ECOLI P0A800 DNA-directed RNA polymerase subunit omega (RNAP omega subunit) (2.7.7.6) (Transcriptase subunit omega) (RNA polymerase omega subunit) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RPPH_ECOLI P0A776 RNA pyrophosphohydrolase (3.6.1.-) ((Di)nucleoside polyphosphate hydrolase) (Ap5A pyrophosphatase) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.1, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = +2 Query: 17 NRQGQVMWAR 26 NRQ +W++ Sbjct: 821 NRQNDTLWSQ 850 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RRAA_ECOLI P0A8R0 Regulator of ribonuclease activity A (161 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.50, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 13/25 (52%) Frame = -2 Query: 5 TSELCDIYQEDVNVVEPLFSNFGGR 29 + + + + V P+F+N GGR Sbjct: 1329 VTAMLPCCRSRLVTVIPIFANAGGR 1255 Score = 16.5 bits (31), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -2 Query: 20 EPLFSNFGGRAS 31 E L +N+G RAS Sbjct: 4470 ERLINNWGPRAS 4435 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RRF_ECOLI P0A805 Ribosome-recycling factor (RRF) (Ribosome-releasing factor) (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 15/50 (30%), Positives = 16/50 (32%), Gaps = 24/50 (48%) Frame = -1 Query: 45 YGTPTP-------LRQL-----------------ASVTVEDSRTLKINVF 70 YGTP P RQ SV + DSR KI F Sbjct: 1693 YGTPAPNN*DLQ*CRQF*PFRDTTRLIFASQYGSNSVIIFDSRLKKITAF 1544 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RRMA_ECOLI P36999 Ribosomal RNA large subunit methyltransferase A (2.1.1.51) (rRNA (guanine-N(1)-)-methyltransferase) (23S rRNA m1G745 methyltransferase) (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RRMJ_ECOLI P0C0R7 Ribosomal RNA large subunit methyltransferase J (2.1.1.-) (rRNA (uridine-2'-O-)-methyltransferase) (23S rRNA m2U2552 methyltransferase) (Cell division protein ftsJ) (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -2 Query: 76 KGRIIACDLLPM 87 GRII CD L + Sbjct: 669 NGRIIPCDALSL 634 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +1 Query: 81 ACDLLP 86 CDLLP Sbjct: 13 GCDLLP 30 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RRMT_ECOLI P0ADR6 Putative RNA 2'-O-ribose methyltransferase ygdE (2.1.1.-) (366 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -3 Query: 256 WLREDGFKFRPT 267 WLRE RP+ Sbjct: 3149 WLREPDLNQRPS 3114 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS10_ECOLI P0A7R5 30S ribosomal protein S10 (103 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 6.5, Method: Composition-based stats. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -1 Query: 69 THLRLVDIVEPT 80 +HL LVD PT Sbjct: 2800 SHL*LVDSDFPT 2765 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS11_ECOLI P0A7R9 30S ribosomal protein S11 (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.6, Method: Composition-based stats. Identities = 9/33 (27%), Positives = 13/33 (39%) Frame = -2 Query: 39 GNALGWATAGGSGFRGSRKSTPFAAQVAAERCA 71 GN+L A S S + A + RC+ Sbjct: 5049 GNSLSGT*ANSSKEENSASTKTVAHSSSISRCS 4951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS12_ECOLI P0A7S3 30S ribosomal protein S12 (124 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.082 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.082, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 14/19 (73%) Frame = +1 Query: 1 MATVNQLVRKPRARKVAKS 19 MAT+NQ++ + A+ VA+ Sbjct: 6376 MATINQVIDQETAQLVAEE 6432 Score = 16.2 bits (30), Expect = 3.0, Method: Composition-based stats. Identities = 5/20 (25%), Positives = 13/20 (65%) Frame = -3 Query: 29 QKRGVCTRVYTTTPKKPNSA 48 +K+G+ + + + KKP ++ Sbjct: 3344 KKKGLIAQSFFSNNKKPRNS 3285 Score = 14.6 bits (26), Expect = 9.8, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 12/28 (42%) Frame = -3 Query: 22 PALEACPQKRGVCTRVYTTTPKKPNSAL 49 PAL R TRV K+ SA+ Sbjct: 464 PALFKASSTRF*LTRVSDVIGKRKVSAV 381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS13_ECOLI P0A7S9 30S ribosomal protein S13 (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS14_ECOLI P0AG59 30S ribosomal protein S14 (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.3, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -1 Query: 49 QTLPRD 54 QTLP D Sbjct: 1258 QTLPND 1241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS15_ECOLI P0ADZ4 30S ribosomal protein S15 (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +3 Query: 47 KKDHHSRRGLLR 58 ++DH + RGL R Sbjct: 6621 RRDHTAYRGLSR 6656 Score = 15.0 bits (27), Expect = 4.1, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 4/7 (57%) Frame = -1 Query: 37 NHLQGHF 43 NH HF Sbjct: 4045 NHFTDHF 4025 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS16_ECOLI P0A7T3 30S ribosomal protein S16 (82 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +1 Query: 2 VTIRLARHGAKKRPFYQV 19 ++R R+GA FY+ Sbjct: 4711 CSVRS*RYGAS*GSFYRC 4764 Score = 15.0 bits (27), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 13 KRPFYQVVV 21 K PF+ VVV Sbjct: 1061 K*PFFLVVV 1035 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS17_ECOLI P0AG63 30S ribosomal protein S17 (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.3, Method: Composition-based stats. Identities = 7/27 (25%), Positives = 15/27 (55%) Frame = +1 Query: 19 KSIVVAIERFVKHPIYGKFIKRTTKLH 45 K + + + + HP++ F+K +LH Sbjct: 1912 KRLGITENQVLNHPLFELFLK-NDQLH 1989 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS18_ECOLI P0A7T7 30S ribosomal protein S18 (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 9.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.5 bits (23), Expect = 9.6, Method: Composition-based stats. Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 10/47 (21%) Frame = +2 Query: 14 TAEGVQEIDYKDI---------ATLKNYITESGK-IVPSRITGTRAK 50 T E QEI ++ + + YI + K +V RIT AK Sbjct: 4064 TLEAAQEISKEEAQQNTPISTESEIPTYIEDQIKSVVFDRITTQTAK 4204 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS19_ECOLI P0A7U3 30S ribosomal protein S19 (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.84 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.84, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 41 FPNMIGLTIAVHN 53 PN+IGL A N Sbjct: 55 IPNIIGLKEATGN 93 Score = 15.0 bits (27), Expect = 5.0, Method: Composition-based stats. Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 6/49 (12%) Frame = +2 Query: 24 ESGDKKPLRTWSRRSTIFPNMIGLT------IAVHNGRQHVPVFVTDEM 66 ++GD + R W S + +T I+ +Q+ P+ E+ Sbjct: 3992 KTGDFETFRRWKVVSEVVMPTREITLEAAQEISKEEAQQNTPISTESEI 4138 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS1_ECOLI P0AG67 30S ribosomal protein S1 (557 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.021 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.8 bits (55), Expect = 0.021, Method: Compositional matrix adjust. Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 3/76 (3%) Frame = +2 Query: 169 SRRAVIESENSAERDQLLENL--QEGMEVKGIVKNLTDYGAFVDLG-GVDGLLHITDMAW 225 +++ +++ AER ++E QEG V VK ++ +DLG +G++ DM Sbjct: 4199 AKQVIVQKVREAERAVVIEQFREQEGKIVTATVKKVSRESIILDLGNNAEGIIGQEDML- 4375 Query: 226 KRVKHPSEIVNVGDEI 241 P E + GD I Sbjct: 4376 -----PRENIRPGDRI 4408 Score = 18.1 bits (35), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 348 QCKANPWQQF 357 QC PW +F Sbjct: 3470 QCGLAPWNKF 3441 Score = 17.3 bits (33), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +3 Query: 404 EAVREYKKGDEIAAVV 419 EAVR+Y+K + ++ Sbjct: 1911 EAVRDYRKPSAKSPII 1958 Score = 17.3 bits (33), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +2 Query: 297 EEGVEGLVHVSEMD 310 E+GV L + E+D Sbjct: 5252 EQGVSDLADIEELD 5293 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS20_ECOLI P0A7U7 30S ribosomal protein S20 (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS21_ECOLI P68679 30S ribosomal protein S21 (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 3.7, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 17/27 (62%), Gaps = 1/27 (3%) Frame = +1 Query: 36 EFYEKPTTERKRAKASAVKR-HAKKLA 61 + +KP ++AK+ + K +AKK+A Sbjct: 5728 QVEKKPAKAEEQAKSESAKEANAKKIA 5808 Score = 14.2 bits (25), Expect = 5.9, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -3 Query: 42 TTERKRAKASAVKR 55 +TER + ASA +R Sbjct: 5915 STERFSSAASASRR 5874 Score = 14.2 bits (25), Expect = 5.9, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +2 Query: 27 GVLAEVR 33 G+L E+R Sbjct: 4412 GILYEIR 4432 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS2_ECOLI P0A7V0 30S ribosomal protein S2 (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS3_ECOLI P0A7V3 30S ribosomal protein S3 (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +3 Query: 143 RLGAKGIKVEVSG 155 R+G+ IK VSG Sbjct: 3258 RIGSSCIKPRVSG 3296 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS4_ECOLI P0A7V8 30S ribosomal protein S4 (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 197 EHLIVELYSK 206 EH I +YS Sbjct: 3770 EHFIFSIYSN 3741 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS5_ECOLI P0A7W1 30S ribosomal protein S5 (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.2, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -1 Query: 116 EVAGVHN 122 ++AG HN Sbjct: 5335 DIAGCHN 5315 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS6_ECOLI P02358 30S ribosomal protein S6 (30S ribosomal protein S6, fully modified isoform) (30S ribosomal protein S6, non-modified isoform) (135 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS7_ECOLI P02359 30S ribosomal protein S7 (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.041 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.041, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 12/19 (63%) Frame = +1 Query: 137 KREDVHRMAEANKAFAHYR 155 KRE HR + K+ AHYR Sbjct: 868 KREPPHRRSSGCKSNAHYR 924 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +3 Query: 116 MALRLANELSDAAENKGT 133 +ALRL A N+GT Sbjct: 2412 IALRLFAIFFSDARNRGT 2465 Score = 15.4 bits (28), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 6 VIGQRKI 12 VIG+RK+ Sbjct: 410 VIGKRKV 390 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS8_ECOLI P0A7W7 30S ribosomal protein S8 (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 12/17 (70%) Frame = +2 Query: 67 QGKAVVESIQRVSRPGL 83 +GK V ++++VSR + Sbjct: 4271 EGKIVTATVKKVSRESI 4321 Score = 15.0 bits (27), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%) Frame = +2 Query: 79 SRPGLRIYKRKDELPKV 95 SRP + I + E+P++ Sbjct: 4469 SRPEMLIELFRIEVPEI 4519 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RS9_ECOLI P0A7X3 30S ribosomal protein S9 (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.63, Method: Composition-based stats. Identities = 10/26 (38%), Positives = 12/26 (46%) Frame = +3 Query: 104 VTRDARQVERKKVGLRKARRRPQFSK 129 VT D + +RKA R P F K Sbjct: 3741 VTVDGKDEVFALSNIRKANRAPHF*K 3818 Score = 16.2 bits (30), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +2 Query: 21 IKPGNGKIVINQ 32 +K +GKI +NQ Sbjct: 2753 VKAVSGKI*VNQ 2788 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSD_ECOLI P0AFX4 Regulator of sigma D (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = +1 Query: 93 WPQLEANTQQIMDYY 107 WP+ A ++ DY+ Sbjct: 6001 WPEPIAEQIELTDYH 6045 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSEA_ECOLI P0AFX7 Sigma-E factor negative regulatory protein (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.56, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = +2 Query: 93 KVRPWAAQLTQMGVAACVSLAV 114 KVR WA L ++ C+ L V Sbjct: 2594 KVRIWALHLERVPPQLCLDLVV 2659 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSEB_ECOLI P0AFX9 Sigma-E factor regulatory protein rseB (Precursor) (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -2 Query: 153 RYSYIVWM 160 RY Y VW+ Sbjct: 3483 RYKYAVWI 3460 Score = 16.9 bits (32), Expect = 5.2, Method: Composition-based stats. Identities = 5/9 (55%), Positives = 5/9 (55%) Frame = -2 Query: 219 KFSWTPTWL 227 KF W TW Sbjct: 5562 KFIWHLTWF 5536 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSEC_ECOLI P46187 Sigma-E factor regulatory protein rseC (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.87 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.87, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 17/35 (48%) Frame = +2 Query: 39 VLNKLGPQTTHTIVVPCDEPLVPGQKVELGIAEGS 73 VLN + P +IVV D + + + + EG+ Sbjct: 4721 VLNAMAPAEVASIVVDED-----AKTMNIAVEEGN 4810 Score = 15.0 bits (27), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 83 MSPLVGLFL 91 M+P+V LFL Sbjct: 1599 MAPIV*LFL 1573 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSEP_ECOLI P0AEH1 Regulator of sigma E protease (3.4.24.-) (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSGA_ECOLI P39286 Putative ribosome biogenesis GTPase rsgA (3.6.1.-) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 6/28 (21%) Frame = -1 Query: 94 KGIVEAVH------ERTSVLTRPDFYDG 115 +G V+ +H + +SVL R F+D Sbjct: 6535 RGRVKQIHPPLPYRDHSSVLLRVHFHDA 6452 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSMB_ECOLI P36929 Ribosomal RNA small subunit methyltransferase B (2.1.1.-) (rRNA (cytosine-C(5)-)-methyltransferase rsmB) (16S rRNA m5C967 methyltransferase) (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.53, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +2 Query: 337 IKWLRRDRDIPELAQLQSEI 356 IKW R D D+P + Q + Sbjct: 929 IKWNRADEDVPFAGRYQISV 988 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSMC_ECOLI P39406 Ribosomal RNA small subunit methyltransferase C (2.1.1.52) (rRNA (guanine-N(2)-)-methyltransferase rsmC) (16S rRNA m2G1207 methyltransferase) (343 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 16/60 (26%), Positives = 20/60 (33%), Gaps = 10/60 (16%) Frame = -2 Query: 2 SAFTPASEVLLRHSDDFEQSRILFAGDLQDDLPARLDTAASRA----------HTQQFHH 51 S FT S + + H FE F QD+ + R HT FHH Sbjct: 6522 SRFTRHSHIAITHQCFFE-----FIFTTQDNFMTHFFSNQLRCFLINNLVDCCHTT*FHH 6358 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSMD_ECOLI P0ADX9 Ribosomal RNA small subunit methyltransferase D (2.1.1.52) (rRNA (guanine-N(2)-)-methyltransferase) (16S rRNA m2G966 methyltransferase) (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 9/17 (52%) Frame = +2 Query: 45 NWLAPVIVDAQCLDCFA 61 +W+ ++V CL F Sbjct: 6545 SWVMLIMVRLHCLIAFV 6595 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -2 Query: 69 EALSRYAAGA 78 +ALS ++AGA Sbjct: 648 DALSLFSAGA 619 Score = 15.8 bits (29), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 23 KLPVPDSPG 31 K+P+ SPG Sbjct: 4419 KIPLMRSPG 4393 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSME_ECOLI P0AGL7 Ribosomal RNA small subunit methyltransferase E (2.1.1.-) (16S rRNA m3U1498 methyltransferase) (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.5, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 15/30 (50%) Frame = +2 Query: 109 PLFSERCGVKLDSERLNKKLQQWQKIAIAA 138 P + CG+K ++ ++W KIA A Sbjct: 2186 PPMAVACGIK-------RR*KRWIKIAFVA 2254 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSMF_ECOLI P76273 Ribosomal RNA small subunit methyltransferase F (2.1.1.-) (rRNA (cytosine-C(5)-)-methyltransferase rsmF) (16S rRNA m5C1407 methyltransferase) (479 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.22 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.22, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -2 Query: 423 EWYRGRDVYP 432 WYRGRD+ P Sbjct: 3015 NWYRGRDLNP 2986 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSMG_ECOLI P0A6U5 Ribosomal RNA small subunit methyltransferase G (2.1.1.-) (16S rRNA 7-methylguanosine methyltransferase) (16S rRNA m7G methyltransferase) (Glucose-inhibited division protein B) (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.70, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 13/25 (52%) Frame = -2 Query: 10 KDAGISLTDHQKNQLIAYVNMLHKW 34 K +SLTD+ QLI + L W Sbjct: 2025 KGFTVSLTDNGIVQLIIFQKQLK*W 1951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSPA_ECOLI P38104 Starvation-sensing protein rspA (404 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +2 Query: 306 LYQVRTGSHGP 316 LY++R + GP Sbjct: 4418 LYEIRPEARGP 4450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSPB_ECOLI P38105 Starvation-sensing protein rspB (1.1.1.-) (339 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.67, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 11/15 (73%) Frame = +2 Query: 265 SEVIQQGITGKELSI 279 ++V QQG GK+L I Sbjct: 692 AQVSQQGAVGKQLDI 736 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -3 Query: 328 KHCCKVL 334 K CCKVL Sbjct: 6248 KLCCKVL 6228 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSSA_ECOLI P0AFR0 NTE family protein rssA (314 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = -2 Query: 269 PDILIQPVCPQISTLDFHRAHA 290 PD+L P C +F R +A Sbjct: 6645 PDMLCDPSC--FPCRNFGRTNA 6586 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSTA_ECOLI P52108 Transcriptional regulatory protein rstA (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.7, Method: Compositional matrix adjust. Identities = 14/52 (26%), Positives = 20/52 (38%) Frame = +1 Query: 188 KNLRGVSYDGLDRSVDVAISRLRKKLLDNAAEPYRIKTVRNKGYLFAPHAWE 239 K R L RSV+ + R ++ AE R N+G P A + Sbjct: 5869 KTRREAEAAELKRSVEREVRRKIEEDAKRVAEEARKMAAENEGKWPEPIAEQ 6024 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +3 Query: 88 ILALEMGACDYILKTTPP 105 + ALE+ Y+LK P Sbjct: 4398 VTALEVFCMRYVLKHEVP 4451 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSTB_ECOLI P18392 Sensor protein rstB (2.7.13.3) (433 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -2 Query: 327 LLNNALRYCHST 338 L+NN + CH+T Sbjct: 6405 LINNLVDCCHTT 6370 Score = 17.7 bits (34), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +1 Query: 192 ERLGVAFNQMADNINA 207 +R+GV +DN++A Sbjct: 2293 KRIGVPLAPFSDNVSA 2340 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -2 Query: 415 ARFSFSWPL 423 +F+FS+PL Sbjct: 276 GKFTFSYPL 250 Score = 16.9 bits (32), Expect = 8.0, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = -2 Query: 318 RLMERVLDNLLNNALRYCH 336 R + +LD LL N CH Sbjct: 462 RTFQGILDALLINKG*RCH 406 Score = 16.9 bits (32), Expect = 8.1, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = +2 Query: 266 ARLDRPQNELHLSEPDLPLW 285 AR+ NEL D+ LW Sbjct: 4640 ARVQAVSNELGGERIDIVLW 4699 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RSUA_ECOLI P0AA43 Ribosomal small subunit pseudouridine synthase A (5.4.99.-) (16S pseudouridylate 516 synthase) (16S pseudouridine 516 synthase) (rRNA-uridine isomerase A) (rRNA pseudouridylate synthase A) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.65, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 7/25 (28%) Frame = +3 Query: 66 NKPQGYVC-------STDDPDHPTV 83 N+ +G+ C +TDD HPT Sbjct: 6741 NRYRGFGCCGR*WGHATDDRGHPTC 6815 Score = 16.2 bits (30), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +3 Query: 179 SEGRYHQVKR 188 S +YH+VKR Sbjct: 51 SNPQYHRVKR 80 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RTCA_ECOLI P46849 RNA 3'-terminal phosphate cyclase (RNA-3'-phosphate cyclase) (RNA cyclase) (6.5.1.4) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.11, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 13/22 (59%) Frame = -3 Query: 173 PVASFNTLQLGERGNIVQMRGE 194 PVASFN + LG N+ + G Sbjct: 89 PVASFNPMILGI*ANLTTVSGN 24 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +1 Query: 105 VLPALWFADGP 115 +LP W D P Sbjct: 6913 ILPEEWGGDSP 6945 Score = 16.9 bits (32), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 13/16 (81%) Frame = -3 Query: 251 VVGEKRVSAEVVAAQL 266 V+G+++VSA + ++L Sbjct: 410 VIGKRKVSAVINPSRL 363 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RTCB_ECOLI P46850 Protein rtcB (408 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 1/67 (1%) Frame = +2 Query: 252 ENVVTALQ-SITQKTVRQPQTLAMEEINCHHNYVQKEQHFGEEIYVTRKGAVSARAGQYG 310 EN++ LQ S+ K + + + + Y K Q G+E Y+ A Q Sbjct: 485 ENIMAILQKSVMIKIISVLWLMLLAACSTEQRY--KRQVSGDEAYLNAPALKRLNASQGI 658 Query: 311 IIPGSMG 317 I+P G Sbjct: 659 ILPLQHG 679 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +3 Query: 162 TLGTGNHFIEICL 174 LG G H ++CL Sbjct: 4623 VLGCGEHVFKLCL 4661 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 141 YQWLTQKYP 149 + WLTQ +P Sbjct: 2793 FSWLTQIFP 2767 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +1 Query: 308 QYGIIPGSMGAKSFIV 323 Q+GI+P G S V Sbjct: 6904 QHGILPEEWGGDSPFV 6951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RTCR_ECOLI P38035 Transcriptional regulatory protein rtcR (532 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.033 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.033, Method: Compositional matrix adjust. Identities = 14/35 (40%), Positives = 18/35 (51%) Frame = +1 Query: 311 FYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFRE 345 F G +S + AG + +L Q VAEGKF E Sbjct: 175 FIQKGGQGIISVTANVAAGGMTELCQRVAEGKFTE 279 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = -1 Query: 347 LYARINLWTFTLPG 360 +Y ++W F PG Sbjct: 6163 VYCLFSVW*FYFPG 6122 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RTN_ECOLI P76446 Protein rtn (518 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -2 Query: 94 RTFVLVKDKKTFCSS 108 R F L ++ TFC S Sbjct: 5850 RQFFLFYNRLTFCVS 5806 Score = 17.3 bits (33), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -1 Query: 378 PAHHFQIVLEITERDMLK 395 P+H FQI R +++ Sbjct: 3325 PSHFFQITKNPETRGLIQ 3272 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUMA_ECOLI P55135 23S rRNA (uracil-5-)-methyltransferase rumA (2.1.1.-) (23S rRNA(M-5-U1939)-methyltransferase) (433 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.89, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 13/22 (59%) Frame = -1 Query: 17 ITVSVNDLDSFGQGVARHNGKT 38 I + ND+++F + RH+ T Sbjct: 4708 IIIPQNDINTFSPQLVRHSLNT 4643 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUMB_ECOLI P75817 23S rRNA (uracil-5-)-methyltransferase rumB (2.1.1.-) (23S rRNA(M-5-U747)-methyltransferase) (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = -2 Query: 159 HEQLPQLKVITVNIQPV 175 H L L VIT++ QP+ Sbjct: 4914 HFSLSSLIVITLSSQPL 4864 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/31 (25%), Positives = 15/31 (48%) Frame = -2 Query: 66 SVEKPLLGMLHRDGTPEDLCDCPLYPASFAP 96 S + PL+ R + + CP+ P++ P Sbjct: 4425 SYKIPLMRSPGRMFSRGSISSCPIIPSALLP 4333 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUSA_ECOLI P0AG74 Crossover junction endodeoxyribonuclease rusA (3.1.22.4) (Holliday junction nuclease rusA) (Holliday junction resolvase) (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTA_ECOLI P75898 Putative monooxygenase rutA (1.14.-.-) (Pyrimidine utilization protein A) (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTB_ECOLI P75897 Putative isochorismatase family protein rutB (3.-.-.-) (Pyrimidine utilization protein B) (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.77, Method: Compositional matrix adjust. Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 5/58 (8%) Frame = -1 Query: 88 NFHKSNA-----LKTMRKQPQLQGKLLAKGSWDYQLVDELVPQPGDIVLPKPRYSGFF 140 N H+ A LK P L+ S+ QL+ ++ +P DI ++GFF Sbjct: 5467 NLHQQTAV*GDQLKLRSLLPATLWLHLSCCSFLLQLL-RIIAKPADIAGCHN*FTGFF 5297 Score = 19.2 bits (38), Expect = 0.88, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = +3 Query: 133 KPRYSGFF 140 KPR SGFF Sbjct: 3279 KPRVSGFF 3302 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 15/27 (55%) Frame = +1 Query: 56 AVTAARAAGMLIIWFQNGWDEQYVEAG 82 +VTA AAG + Q + ++ EAG Sbjct: 205 SVTANVAAGGMTELCQRVAEGKFTEAG 285 Score = 16.9 bits (32), Expect = 3.7, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 1/22 (4%) Frame = -3 Query: 133 KPRYSGFFNT-PLDSILRSRGI 153 KPR SGF T P + S G+ Sbjct: 3299 KPRNSGFDTTGPYSPLKESLGM 3234 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTC_ECOLI P0AFQ5 UPF0076 protein rutC (Pyrimidine utilization protein C) (128 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -2 Query: 95 EFFPGDKPARFCIQCGLV 112 F+ + +RFC+ GLV Sbjct: 5919 SFYRTFQFSRFCLTAGLV 5866 Score = 15.4 bits (28), Expect = 5.7, Method: Composition-based stats. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +3 Query: 109 CGLVKPDALV 118 C LVK ALV Sbjct: 4371 CCLVKTYALV 4400 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTD_ECOLI P75895 Protein rutD (Pyrimidine utilization protein D) (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -1 Query: 57 LAEDYSIAQMAAELHQ 72 LAE S+ Q+ LHQ Sbjct: 5503 LAE*QSLFQIFLNLHQ 5456 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTE_ECOLI P75894 Putative NADH dehydrogenase/NAD(P)H nitroreductase rutE (1.-.-.-) (Pyrimidine utilization protein E) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.77, Method: Compositional matrix adjust. Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 8/38 (21%) Frame = +1 Query: 135 ACRALGLDTG-----PMSGF---DRQHVDDAFFTGSTL 164 AC+ LGL T PM+ +++ V+DA + L Sbjct: 358 ACKRLGLITAETLRLPMTSLTLVNQKRVEDALKSAGLL 471 Score = 16.2 bits (30), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -1 Query: 39 LMKWGPTSANCSPARI 54 L PTS +P+R+ Sbjct: 3118 LRVMSPTSYQAAPSRV 3071 Score = 15.8 bits (29), Expect = 7.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = +3 Query: 3 EAVSPGALSTLFT 15 E SPG LFT Sbjct: 3585 EVSSPGLERLLFT 3623 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTF_ECOLI P75893 Putative flavin reductase rutF (1.5.1.-) (Pyrimidine utilization protein F) (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +2 Query: 146 PYGLVW 151 PY +VW Sbjct: 1232 PYAIVW 1249 Score = 16.5 bits (31), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = +2 Query: 70 CVNTLSAGQEPLSNLFGGK 88 CV A + +SN GG+ Sbjct: 4622 CVGMRGARVQAVSNELGGE 4678 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTG_ECOLI P75892 Putative pyrimidine permease rutG (Pyrimidine utilization protein G) (442 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +1 Query: 250 MLIAPVAVILVAENLGH 266 +I LVAE +GH Sbjct: 6391 QVIDQETAQLVAEEMGH 6441 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUTR_ECOLI P0ACU2 HTH-type transcriptional regulator rutR (Rut operon repressor) (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +1 Query: 111 ASRLFCMEMLA 121 AS L C++MLA Sbjct: 3496 ASPLICVQMLA 3528 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 11/25 (44%) Frame = -2 Query: 110 QASRLFCMEMLAGAPLLMDELTGDL 134 ASR FC ++M T DL Sbjct: 4236 SASRTFCTITCFAVWVVMRSKTTDL 4162 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUVA_ECOLI P0A809 Holliday junction ATP-dependent DNA helicase ruvA (3.6.1.-) (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 12/17 (70%) Frame = +1 Query: 118 KKTAERLIVEMKDRFKG 134 KKT E++ KDRF+G Sbjct: 2212 KKTLEKMD---KDRFRG 2253 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUVB_ECOLI P0A812 Holliday junction ATP-dependent DNA helicase ruvB (3.6.1.-) (336 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.042 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.042, Method: Compositional matrix adjust. Identities = 24/115 (20%), Positives = 34/115 (29%), Gaps = 4/115 (3%) Frame = -2 Query: 136 DIMIGE----GPAARSIKIDLPPFTLIGATTRAGSLTSPLRDRFGIVQRLEFYQVPDLQY 191 D++IG+ G R PFT I ++P R F + FY+ Sbjct: 6048 DMVIGQFDLFGYGFR-------PFTFIFCCHFTRFFSNPFRVFFYLTAHFSFYRTFQFS- 5893 Query: 192 IVSRSARFMGLEMSDDGALEVARRARGTPRIANRLLRRVRDFAEVKHDGTISADI 246 L +R NRL V DF V T + + Sbjct: 5892 -----------RFCLTAGLVTLLLSRQFFLFYNRLTFCVSDFFRVSFLCTFTFCL 5761 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +1 Query: 315 PRGRMATTRAWNHF 328 P GR + + NHF Sbjct: 3112 PEGRWFKSGSRNHF 3153 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUVC_ECOLI P0A814 Crossover junction endodeoxyribonuclease ruvC (3.1.22.4) (Holliday junction nuclease ruvC) (Holliday junction resolvase ruvC) (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RUVX_ECOLI P0A8I1 Putative Holliday junction resolvase (3.1.-.-) (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.94 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.94, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -2 Query: 46 ERLLKEWQP 54 ERL+ W P Sbjct: 4470 ERLINNWGP 4444 Score = 16.9 bits (32), Expect = 2.2, Method: Composition-based stats. Identities = 11/30 (36%), Positives = 14/30 (46%), Gaps = 4/30 (13%) Frame = +3 Query: 56 EIIVGLPLNMDGTE----QPLTARARKFAN 81 +I LP+ +GTE PL A R N Sbjct: 903 QIKRSLPIG*NGTEPMKMSPLQAVIRLVCN 992 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RZOD_ECOLI P58041 Outer membrane lipoprotein Rz1 from lambdoid prophage DLP12 (Precursor) (60 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.50, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +2 Query: 26 VSQCVKPPRPPAWIM 40 V+ PP P+W+M Sbjct: 6512 VNLLYAPPSSPSWVM 6556 Score = 14.2 bits (25), Expect = 5.0, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 8/14 (57%) Frame = +3 Query: 27 SQCVKPPRPPAWIM 40 S C+KP +++ Sbjct: 3267 SSCIKPRVSGFFVI 3308 Score = 13.9 bits (24), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 7/14 (50%) Frame = +2 Query: 19 GCTSKQSVSQCVKP 32 CT SV VKP Sbjct: 1982 SCTIPLSVRLTVKP 2023 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RZOR_ECOLI P58042 Outer membrane lipoprotein Rz1 from lambdoid prophage Rac (Precursor) (61 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RZPD_ECOLI P75719 Putative Rz endopeptidase from lambdoid prophage DLP12 (3.4.-.-) (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RZPQ_ECOLI P21418 Putative protein rzpQ from lambdoid prophage Qin (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 33 KWANEARAKQAEN 45 + A EAR AEN Sbjct: 5953 RVAEEARKMAAEN 5991 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= RZPR_ECOLI P77551 Putative Rz endopeptidase from lambdoid prophage Rac (3.4.-.-) (Fragment) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SANA_ECOLI P0AFY2 Protein sanA (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.31, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 10/10 (100%) Frame = +1 Query: 83 NYLLLSGDNA 92 N++LLSGD+A Sbjct: 133 NFILLSGDDA 162 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 2/49 (4%) Frame = -2 Query: 111 VDPSDIVLDYAGFRTLDSIVRTRKVFDTNDFII--ITQRFHCERALFIA 157 + D + A F+ +T V ++II ITQ FH + F + Sbjct: 2178 ITQGDFIFKQAKFQFEIH*NQTSIVKQFTEYIINLITQLFHLRQMRFTS 2032 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -2 Query: 166 CYAVPS 171 C+AVPS Sbjct: 5388 CHAVPS 5371 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SAPA_ECOLI Q47622 Peptide transport periplasmic protein sapA (Precursor) (547 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -3 Query: 24 ESPPHADIRDSGFVYC 39 ESPPH+ SG + C Sbjct: 6941 ESPPHS----SGRIPC 6906 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SAPB_ECOLI P0AGH3 Peptide transport system permease protein sapB (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 14/45 (31%), Positives = 18/45 (40%) Frame = -1 Query: 150 LYEVKPITGFALIDAWLSDSPWRDEMIMSAIRHMILPVITLSVAP 194 LYE+ P TGF + S I H L V L ++P Sbjct: 3022 LYELVPRTGFEPV---------------SPIEHYHLKVACLPISP 2933 Score = 16.9 bits (32), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -2 Query: 31 PHAPLQGASLWN 42 P+ PLQ +W+ Sbjct: 5583 PYFPLQRKFIWH 5548 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +1 Query: 64 QPIAEQLK 71 +PIAEQ++ Sbjct: 6007 EPIAEQIE 6030 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SAPC_ECOLI P0AGH5 Peptide transport system permease protein sapC (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 205 WFAVMPN 211 WF+V+PN Sbjct: 1937 WFSVIPN 1917 Score = 16.2 bits (30), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -2 Query: 212 ITAGLVT 218 +TAGLVT Sbjct: 5883 LTAGLVT 5863 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SAPD_ECOLI P0AAH4 Peptide transport system ATP-binding protein sapD (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.18, Method: Compositional matrix adjust. Identities = 35/139 (25%), Positives = 59/139 (42%), Gaps = 6/139 (4%) Frame = -3 Query: 170 AIALANQPRLLIADEPTNSMEPT-TQAQI----FRLLTRLNQNSNTTILLISHDLQMLSQ 224 A++ ++ P +AD TN P + +I +L R +ILLI+ + Sbjct: 6998 ALSRSSIPVPFLADT*TNGESPPHSSGRIPC*DSSVLRRSGSAFGLSILLITTTTGTFAA 6819 Query: 225 WADKINVLYCGQTVETAP-SKELVTMPHHPYTQALIRAIPDFGSAMPHKSRLNTLPGAIP 283 A + + CG T +A +K +++ P RA D +A P S+ T+P ++ Sbjct: 6818 LACWMASIVCGMTPSSAATTKTTISVA*AP------RARIDVNAACPGVSKKVTIPFSVS 6657 Query: 284 LLEQLPIGCRLGPRCPYAQ 302 PI C + P P A Sbjct: 6656 T**A-PICCVIPPASPAAT 6603 Score = 19.6 bits (39), Expect = 0.87, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = -2 Query: 129 FGWRKRRAIELLH 141 FG RRA +LLH Sbjct: 3117 FGL*ARRATKLLH 3079 Score = 19.6 bits (39), Expect = 1.0, Method: Compositional matrix adjust. Identities = 4/17 (23%), Positives = 10/17 (58%) Frame = +3 Query: 222 LSQWADKINVLYCGQTV 238 L+ W + + + +CG + Sbjct: 4659 LTSWGENVLISFCGMII 4709 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -2 Query: 312 TGAKNHLYACHFPL 325 TGA+N A +FPL Sbjct: 5610 TGARNI*SAPYFPL 5569 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 3/9 (33%), Positives = 7/9 (77%) Frame = +3 Query: 303 RECIVTPRL 311 + C++ PR+ Sbjct: 5082 KSCVIVPRM 5108 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SAPF_ECOLI P0AAH8 Peptide transport system ATP-binding protein sapF (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 207 VTQHIG 212 +TQHIG Sbjct: 6628 ITQHIG 6645 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SBCC_ECOLI P13458 Nuclease sbcCD subunit C (1048 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +1 Query: 32 LFAITGPTGAGKTTLLDAI 50 + I G GKT+LLD I Sbjct: 6535 VVTIMGHVDHGKTSLLDCI 6591 Score = 18.9 bits (37), Expect = 5.7, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%), Gaps = 2/19 (10%) Frame = -1 Query: 293 RPH--WERIAEHSAALAHI 309 +PH W+R A+H + A I Sbjct: 2011 KPH*QWDRAADHFSKTAQI 1955 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SBCD_ECOLI P0AG76 Nuclease sbcCD subunit D (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.22 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.22, Method: Compositional matrix adjust. Identities = 28/109 (25%), Positives = 39/109 (35%), Gaps = 5/109 (4%) Frame = +1 Query: 94 RDIMAFLNTTVVASAGHAPQILPRRD----GTPGAVLCPIPFLRPRDIITSQAG-LNGIE 148 R I + LN + QI RR TP A L + T QA + +E Sbjct: 5572 RKIRSTLNVPSSGGKSKSVQIEIRRKRTYINTPNAELANTEKAK-----TEQAKQVEQVE 5736 Query: 149 KQQHLLAAITDYYQQHYADACKLRGDQPLPIIATGHLTTVGASKSDAVR 197 K+ A+A K+ + PI+ LTT +SD R Sbjct: 5737 KKPAKAEEQAKSESAKEANAKKIADTKSKPIVEKKKLTT--QQQSDKTR 5877 Score = 20.8 bits (42), Expect = 0.46, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 11/15 (73%) Frame = -3 Query: 184 HLTTVGASKSDAVRD 198 +LTTV +KS VRD Sbjct: 47 NLTTVSGNKSQPVRD 3 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 18/60 (30%), Positives = 28/60 (46%) Frame = +2 Query: 274 PVTQPMAVLKGDLASITAQLEQWRDVSQEPPVWLDIEITTDEYLHDIQRKIQALTESLPV 333 P QP+ +LKG +++E D+S+ + LD D I +Q ESLP+ Sbjct: 740 PPIQPLVLLKG------SRIESTADISK---LLLDNNRQNDTLWSQITTVMQ--NESLPI 886 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +2 Query: 22 AEHQAFLDWL 31 +EH+ L+WL Sbjct: 2867 SEHKEILNWL 2896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SBMA_ECOLI P0AFY6 Protein sbmA (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.71, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = -2 Query: 102 VEVGVAVNAWYAPFYDLIQTALSS 125 + + V V+AW+ LI LSS Sbjct: 4944 ISIAVRVSAWHFSLSSLIVITLSS 4873 Score = 16.5 bits (31), Expect = 9.0, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = -2 Query: 49 AARFWSLDFLIFYAYYIVCVGLFAL 73 AARFW + + +++ L AL Sbjct: 2829 AARFWRRAYFLIFSWLTQIFPLTAL 2755 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SBM_ECOLI P27253 Protein sbm (714 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.61, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 14/35 (40%) Frame = -2 Query: 284 FMNVAMLRAARYLWSEAVSGFGAQDPKSLALRTHC 318 F +ML LW + + G Q+ L T C Sbjct: 6828 FRCFSMLDGLDRLWHDPIIGRNNQNHDICCLSTSC 6724 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SDAC_ECOLI P0AAD6 Serine transporter (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.95 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.95, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -1 Query: 387 FLMPMYAIQKVPAMR 401 FL+P YA+ + P R Sbjct: 5989 FLLPFYALLQQPVSR 5945 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 6/41 (14%) Frame = -3 Query: 339 KGKSIEINKLNRI----TALFMLVT--TWIVATLNPSILGM 373 K K + + L+RI T F++++ + VA+ NP ILG+ Sbjct: 176 KSKPVASSPLSRIKLSPTLGFIMLSRSKFPVASFNPMILGI 54 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = -3 Query: 385 ILFLMPMYAIQKVPAMRKYSGH 406 +LFL PM+++ +SGH Sbjct: 5138 LLFLEPMWSV--------HSGH 5097 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SDHD_ECOLI P00926 D-serine dehydratase (4.3.1.18) (D-serine deaminase) (DSD) (442 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +3 Query: 397 VCASVSYQQMHGFSAEQ 413 +CA VSYQ E+ Sbjct: 3510 MCADVSYQVSAVLDVEE 3560 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SDHL_ECOLI P16095 L-serine dehydratase 1 (SDH 1) (4.3.1.17) (L-serine deaminase 1) (L-SD1) (454 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +2 Query: 220 IDRGMNTEGVLPGPLRVPR 238 +D G N EG++ +PR Sbjct: 4325 LDLGNNAEGIIGQEDMLPR 4381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SDHM_ECOLI P30744 L-serine dehydratase 2 (SDH 2) (4.3.1.17) (L-serine deaminase 2) (L-SD2) (455 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 12/27 (44%) Frame = -1 Query: 290 CGIIPAVLAYYDKFIREVNANSLARYL 316 CG + +DK I SLA +L Sbjct: 4984 CGALFINFKMFDKHINRCTGFSLAFFL 4904 Score = 18.1 bits (35), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = -1 Query: 105 VEFPVDQCMNFH 116 ++ PVD+ +FH Sbjct: 265 LQLPVDKAPSFH 230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SDIA_ECOLI P07026 Regulatory protein sdiA (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.48 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.48, Method: Compositional matrix adjust. Identities = 15/40 (37%), Positives = 20/40 (50%) Frame = +2 Query: 151 QLKMQLLVRESLMALMRLNDEIVMTPEMNFSKREKEILRW 190 QLKM+ R A + L+D +V+ F KEIL W Sbjct: 2786 QLKMRK*ARLQNRAAIFLSDRLVLI----FVSEHKEILNW 2893 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 12/24 (50%) Frame = -2 Query: 135 FSRCSAREIPILSDELQLKMQLLV 158 FSR S PI+ L + +++ Sbjct: 4386 FSRGSISSCPIIPSALLPRSNIML 4315 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECA_ECOLI P10408 Protein translocase subunit secA (901 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.74, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 14/24 (58%) Frame = +2 Query: 758 MMRHFEKGVMLQTLDSLWKEHLAA 781 +M +K VM++ + LW LAA Sbjct: 491 IMAILQKSVMIKIISVLWLMLLAA 562 Score = 19.6 bits (39), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = +2 Query: 98 CIAEMRTGEGKTLTATL 114 I + R EGK +TAT+ Sbjct: 4247 VIEQFREQEGKIVTATV 4297 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECB_ECOLI P0AG86 Protein-export protein secB (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.96 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.96, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = -1 Query: 131 VNFDALFMNYLQQQAGEGTEEH 152 +NFD LF+N+ A E +H Sbjct: 4543 LNFDQLFVNFWYFNA-EKFNQH 4481 Score = 17.7 bits (34), Expect = 1.4, Method: Composition-based stats. Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 5/34 (14%) Frame = -1 Query: 84 FSIAGIEGTQMAHCLGAYCP-----NILFPYARE 112 FS A + CLG+Y N++F +R+ Sbjct: 4237 FSFAYFLYNNLFRCLGSYAVKNYRFNLVFNISRD 4136 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECD_ECOLI P0AG90 Protein-export membrane protein secD (615 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = -3 Query: 25 LPNLFGEDPAVQI 37 +PN F +PAV++ Sbjct: 1925 IPNRFTSEPAVRL 1887 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 9/22 (40%) Frame = -1 Query: 197 HPDLVISSQGSNQLRAVMSDAR 218 HP L S LR DAR Sbjct: 6514 HPPLPYRDHSSVLLRVHFHDAR 6449 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECE_ECOLI P0AG96 Preprotein translocase subunit secE (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.78, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +2 Query: 33 NYLYRDIMLPL 43 NYL + I LPL Sbjct: 320 NYLSKPIQLPL 352 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECF_ECOLI P0AG93 Protein-export membrane protein secF (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECG_ECOLI P0AG99 Protein-export membrane protein secG (Preprotein translocase band 1 subunit) (P12) (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 163 1e-44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 163 bits (413), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 80/110 (72%), Positives = 95/110 (86%) Frame = +1 Query: 1 MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLA 60 MY LLV FL+++IGL+ LI+LQQGKGADMGASFGAGAS+TLFGSSGSGNFMTRMTA+LA Sbjct: 2518 MYVTLLVFFLLISIGLIALIVLQQGKGADMGASFGAGASSTLFGSSGSGNFMTRMTAILA 2697 Query: 61 TLFFIISLVLGNINSNKTNKGSEWENLSAPAKTEQTQPAAPAKPTSDIPN 110 TLFFI+SLVLGN++S + + SEWENLS PAK E+ +AP KP+SDIP Sbjct: 2698 TLFFIVSLVLGNMSSKQHRQSSEWENLSQPAKDEKI--SAPPKPSSDIPQ 2841 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECM_ECOLI P62395 Secretion monitor (Precursor) (170 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.39, Method: Composition-based stats. Identities = 9/29 (31%), Positives = 14/29 (48%) Frame = -1 Query: 132 PSEKGYRIDYAHFTPQAKFSTPVWISQAQ 160 P+ YRID + FST W++ + Sbjct: 4630 PNTCPYRIDTLVVSFNCDFST*RWVTNCR 4544 Score = 16.2 bits (30), Expect = 4.8, Method: Compositional matrix adjust. Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 10/83 (12%) Frame = +1 Query: 43 PAKATTRNHEPSAK-VNFGQLALLEAN----TRRPNSNYSVDYWHQHA-----IRTVIRH 92 PAKA + SAK N ++A ++ ++ + D + A R+V R Sbjct: 5743 PAKAEEQAKSESAKEANAKKIADTKSKPIVEKKKLTTQQQSDKTRREAEAAELKRSVERE 5922 Query: 93 LSFAMAPQTLPVAEESLPLQAQH 115 + + VAEE+ + A++ Sbjct: 5923 VRRKIEEDAKRVAEEARKMAAEN 5991 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SECY_ECOLI P0AGA2 Preprotein translocase subunit secY (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SELA_ECOLI P0A821 L-seryl-tRNA(Sec) selenium transferase (2.9.1.1) (Selenocysteine synthase) (Sec synthase) (Selenocysteinyl-tRNA(Sec) synthase) (463 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SELB_ECOLI P14081 Selenocysteine-specific elongation factor (SelB translation factor) (614 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 64 1e-13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 63.5 bits (153), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 37/95 (38%), Positives = 52/95 (54%) Frame = +1 Query: 2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVPGFIDVPGH 61 ++ GHVDHGKT+LL I + ++ + G+T +G AY + + + F+D PGH Sbjct: 6535 VVTIMGHVDHGKTSLLDCI---RSTKVAAGEAGGITQHIG-AYHVETENGMVTFLDTPGH 6702 Query: 62 EKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHL 96 F S G D +LVVA DDGVM QT E + Sbjct: 6703 AAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAI 6807 Score = 23.1 bits (48), Expect = 0.15, Method: Compositional matrix adjust. Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 2/47 (4%) Frame = -1 Query: 419 WQRKILDTLATYHEQHRDEPGPGRERLRRM--ALPMEDEALVLLLIE 463 W + + +YH+QH D R R++++ LP D + VLL + Sbjct: 6601 WSNECNQAMKSYHDQH-DP*W*RRGRVKQIHPPLPYRDHSSVLLRVH 6464 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SELD_ECOLI P16456 Selenide, water dikinase (2.7.9.3) (Selenophosphate synthetase) (Selenium donor protein) (347 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -2 Query: 294 DLLCDPQT 301 D+LCDP Sbjct: 6642 DMLCDPSC 6619 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +2 Query: 246 VQARVDYEAIPKL 258 VQA D A+P+L Sbjct: 1181 VQAARDDSALPRL 1219 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = +3 Query: 159 TERVKKNSTAQAGC 172 T RVK S AGC Sbjct: 6162 TLRVKSRS*RSAGC 6203 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SELU_ECOLI P33667 tRNA 2-selenouridine synthase (2.9.1.-) (Selenophosphate-dependent tRNA 2-selenouridine synthase) (364 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.52, Method: Compositional matrix adjust. Identities = 12/30 (40%), Positives = 14/30 (46%) Frame = +3 Query: 65 ALGHKLVAGEIRQQRMDAWRAACLQNPQGI 94 ALGHKLV E R R + N G+ Sbjct: 3414 ALGHKLVGVEFIPGRQSTLRIY-IDNCDGV 3500 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +1 Query: 143 PIVLIGGCTGSGKTLLV 159 P+V I G GKT L+ Sbjct: 6532 PVVTIMGHVDHGKTSLL 6582 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 7/15 (46%) Frame = +3 Query: 97 CARGGQRSHIVQSWL 111 C RG +R H L Sbjct: 6606 CGRGSRRDHTAYRGL 6650 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SEQA_ECOLI P0AFY8 Protein seqA (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SERA_ECOLI P0A9T0 D-3-phosphoglycerate dehydrogenase (PGDH) (1.1.1.95) (410 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +2 Query: 157 IGYGHIGTQLGILAESLGM 175 I G QL ++ +SLG+ Sbjct: 980 ISVQQQGNQLALVVKSLGL 1036 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SERB_ECOLI P0AGB0 Phosphoserine phosphatase (PSPase) (PSP) (3.1.3.3) (O-phosphoserine phosphohydrolase) (322 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 103 KIPHLRTPG 111 KIP +R+PG Sbjct: 4419 KIPLMRSPG 4393 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = -2 Query: 279 MIKAAGLGIAYHAKP 293 +I AG YHAKP Sbjct: 135 IITNAGF---YHAKP 100 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SERC_ECOLI P23721 Phosphoserine aminotransferase (2.6.1.52) (Phosphohydroxythreonine aminotransferase) (PSAT) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SETA_ECOLI P31675 Sugar efflux transporter A (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.6, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 11/13 (84%) Frame = +1 Query: 337 AGAATTLFTNSIS 349 AGA++TLF +S S Sbjct: 2623 AGASSTLFGSSGS 2661 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SETB_ECOLI P33026 Sugar efflux transporter B (393 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.95 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.95, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 18/34 (52%) Frame = -2 Query: 95 ACTLFAWNRNYFVLLFVGVFLSSFGSTANPQMFA 128 AC+L RN+ + LF+ ++ G NP F+ Sbjct: 2385 ACSL--CKRNFTLNLFIR*YVVRKGR*RNPDTFS 2290 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +1 Query: 131 REHADKTGREA 141 ++ +DKT REA Sbjct: 5854 QQQSDKTRREA 5886 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SETC_ECOLI P31436 Sugar efflux transporter C (394 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.30, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%) Frame = -2 Query: 226 CSMMWAANNLYMINMPLFIIDE 247 CS+ AANN+ + +FII + Sbjct: 576 CSVEQAANNISHKTLIIFIITD 511 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +2 Query: 147 LRAQISLAWVIGP 159 LR QIS W++ P Sbjct: 6734 LRQQISWFWLLRP 6772 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 100 WNRNYFILLS 109 W R YF++ S Sbjct: 2817 WRRAYFLIFS 2788 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFA_ECOLI P0AAA5 Protein sfa (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -3 Query: 15 GAFFISALFF 24 G F+SA+FF Sbjct: 5825 GLLFVSAIFF 5796 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFGH1_ECOLI P51025 S-formylglutathione hydrolase frmB (FGH) (3.1.2.12) (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 15/53 (28%) Frame = +1 Query: 189 AENKDAWLDYDPVS---------------LISQGQRVAEIMVDQGLSDDFYAE 226 A NK+ +L DP+ LIS G +A I++ QG D A Sbjct: 2461 AHNKEHFLCGDPIGRIGTTMYVTLLVFFLLISIG-LIALIVLQQGKGADMGAS 2616 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -3 Query: 195 WLDYDPVSLISQG 207 W +DP +SQG Sbjct: 3452 WNKFDPY*FVSQG 3414 Score = 16.9 bits (32), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 4/32 (12%) Frame = -3 Query: 228 LRTPNLEKICQEMNIKTLIR----YHEGYDHS 255 L + +++C N + H G+DH+ Sbjct: 5183 LNLTSRQRVCYHQNFLLFLEPMWSVHSGHDHA 5088 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFGH2_ECOLI P33018 S-formylglutathione hydrolase yeiG (FGH) (3.1.2.12) (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.52, Method: Compositional matrix adjust. Identities = 17/73 (23%), Positives = 24/73 (32%), Gaps = 17/73 (23%) Frame = +1 Query: 173 NPCSVPWGIKAFSSYLGEDKNAWLEWDSCALMYASNAQDA-----------------IPT 215 NP +V W K E L S L+ +DA I Sbjct: 337 NPIAVKWACKRLGLITAE--TLRLPMTSLTLVNQKRVEDALKSAGLLS*LLGKYNGYITK 510 Query: 216 LIDQGDNDQFLAD 228 + + DN +F+AD Sbjct: 511 ISNDKDNKRFVAD 549 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%), Gaps = 6/19 (31%) Frame = -2 Query: 171 IVNPCSV------PWGIKA 183 I+NPCS+ WGI + Sbjct: 6987 IINPCSLFS*YVNKWGISS 6931 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 4/13 (30%), Positives = 8/13 (61%) Frame = +1 Query: 195 WLEWDSCALMYAS 207 W +W C L +++ Sbjct: 4825 WAQWSKCTLSFSA 4863 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFMA_ECOLI P0ABW5 Sfm fimbrial protein, A chain (Type-1A pilin) (Precursor) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFMC_ECOLI P77249 Chaperone protein sfmC (Precursor) (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.087 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.087, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 14/30 (46%) Frame = -2 Query: 140 LRPIQLQELPAEAPDTLKFSRSGNYINVHN 169 LRPI ELP+ + F+ S I + Sbjct: 4833 LRPIACAELPSSTAMFIVFASSSTTIEATS 4744 Score = 19.2 bits (38), Expect = 0.83, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = +3 Query: 173 FYVTLVNLQVGSQKLGNAMAAP 194 FY V+L QKL ++AP Sbjct: 3342 FYALGVSLSTLEQKLTEIISAP 3407 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFMD_ECOLI P77468 Outer membrane usher protein sfmD (Precursor) (867 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFMF_ECOLI P38052 Fimbrial-like protein sfmF (Precursor) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 19/47 (40%) Frame = +3 Query: 50 TVDLGRWPTTQLLNAGDTTALVPFSLRLEGCPPGSVAILFTGTPASD 96 TVD+ + Q+ D + LE PG +LFT +D Sbjct: 3501 TVDMCADVSYQVSAVLDVEEPITCPYNLEVSSPGLERLLFTAEDYTD 3641 Score = 15.8 bits (29), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = -1 Query: 135 DANGNVTLNFFANYRA 150 + GN+ A YRA Sbjct: 6952 EQMGNLLPTLLAGYRA 6905 Score = 15.4 bits (28), Expect = 7.3, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +2 Query: 1 MRRVLFSCFCGLLWSS 16 M VLF+ F WSS Sbjct: 3041 MINVLFATFSDAGWSS 3088 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFMH_ECOLI P75715 Protein sfmH (Precursor) (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.029 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.029, Method: Compositional matrix adjust. Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 1/58 (1%) Frame = +1 Query: 159 MFTVYVTSTP-YDPLVTPVYTISFGGRVEVPQNCELNAGQIVEFDFGDIGASLFSAAG 215 +F +++ + +DP+V+ Y +FG E L + + + D+ + LF AG Sbjct: 1954 LFELFLKNDQLHDPIVSEAYCKAFGWASE----AHLAQMKKLSYQVNDVLSKLFDDAG 2115 Score = 22.3 bits (46), Expect = 0.14, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 24/41 (58%), Gaps = 2/41 (4%) Frame = +1 Query: 240 QAYLTMRLEASAVSGQ--AMVSDNQDLGFIVADQNDTPITP 278 + +L+ + + SG+ +VS+ + GF++ ++ND I P Sbjct: 3214 KKHLSEVMPRDSFSGE*GPVVSNPEFRGFLLFEKNDWAIRP 3336 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 13/27 (48%) Frame = -3 Query: 215 GPGNRPAGVMPQTKSIAVKCTNVAAQA 241 G GNR + T +A CT++ A Sbjct: 3575 GTGNRLFNI*HGTHLVANICTHINGDA 3495 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +2 Query: 217 GNRPAGVMPQTKSIAV 232 G + +MP+ K IAV Sbjct: 6068 GQQKMKMMPRLKEIAV 6115 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 222 GVMPQT 227 GVMPQT Sbjct: 6778 GVMPQT 6795 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFSA_ECOLI P0A823 Sugar fermentation stimulation protein A (234 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.022 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.022, Method: Compositional matrix adjust. Identities = 15/37 (40%), Positives = 20/37 (54%) Frame = +2 Query: 182 HSAITRFSPARHIDEKYAQLLSEAQQRGVEILAYKAE 218 +AI F IDE+ A +L EA+ +E LAY E Sbjct: 4928 RTAIDMFIEHLEIDEECATVLVEAEFSSLEELAYVPE 5038 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 13/21 (61%) Frame = +1 Query: 17 KRFLADVITPDGRELTLHCPN 37 KRF+ADV++ TL P+ Sbjct: 532 KRFVADVVSRLFDRTTL*TPS 594 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SFSB_ECOLI P0ACH1 Sugar fermentation stimulation protein B (Ner-like protein) (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGBE_ECOLI P37680 L-ribulose-5-phosphate 4-epimerase sgbE (5.1.3.4) (Phosphoribulose isomerase) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 8/9 (88%) Frame = +3 Query: 83 LYRRYAEIG 91 LY++YA++ Sbjct: 4212 LYKKYAKLN 4238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGBH_ECOLI P37678 3-keto-L-gulonate-6-phosphate decarboxylase sgbH (KGPDC) (4.1.1.85) (3-dehydro-L-gulonate-6-phosphate decarboxylase) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 3/41 (7%) Frame = -2 Query: 131 RQAI---YHRGRDAQASGQQWGEADLARMKALSDIGLELSI 168 +QAI ++RGRD Q R+ +G+E +I Sbjct: 3033 KQAISMNWYRGRDLNP*AQSSTTTSR*RVYQFHHLGIEDNI 2911 Score = 16.2 bits (30), Expect = 6.0, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 14/25 (56%) Frame = +1 Query: 58 IIVADWKVADAGETLAQQAFGAGAN 82 I++ K AD G +FGAGA+ Sbjct: 2575 IVLQQGKGADMGA-----SFGAGAS 2634 Score = 15.4 bits (28), Expect = 9.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = -3 Query: 11 DHSSLEAA 18 DH++LEA+ Sbjct: 5096 DHAALEAS 5073 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGBU_ECOLI P37679 Putative L-ribulose-5-phosphate 3-epimerase sgbU (5.1.3.22) (L-xylulose-5-phosphate 3-epimerase) (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.38, Method: Compositional matrix adjust. Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 6/61 (9%) Frame = +1 Query: 103 LARDLGIRTIQLAGYDVYY------EDHDEGTRQRFAEGLAWAVEQAAASQVMLAVEIMD 156 L + LGI Q+ + ++ + HD + + + WA E A L+ ++ D Sbjct: 1906 LVKRLGITENQVLNHPLFELFLKNDQLHDPIVSEAYCKAFGWASEAHLAQMKKLSYQVND 2085 Query: 157 T 157 Sbjct: 2086 V 2088 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 10/23 (43%) Frame = +2 Query: 163 ISKWKKWDEMLASPWFTVYPDVG 185 IS W + SPW +P + Sbjct: 2129 ISNWNLACLKIKSPWVMSFPPMA 2197 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGCA_ECOLI P39363 Putative phosphotransferase IIA component sgcA (2.7.1.-) (Putative PTS system EIIA component) (143 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.81 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.81, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = +2 Query: 67 EQGANYNQVSITTL 80 E A YN+VSI+ L Sbjct: 6221 ESQALYNRVSISQL 6262 Score = 17.3 bits (33), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 58 GIALPHARPEQ 68 +A PH RP+Q Sbjct: 6793 SVA*PHHRPQQ 6761 Score = 16.2 bits (30), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 9/18 (50%), Gaps = 1/18 (5%) Frame = +3 Query: 16 DWRQ-AVEIATRPLVAYG 32 DW A IATR YG Sbjct: 2556 DWTYCAYRIATR*RCGYG 2609 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGCB_ECOLI P58035 Putative phosphotransferase enzyme IIB component sgcB (2.7.1.69) (Putative PTS system EIIB component) (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGCC_ECOLI P39365 Putative permease IIC component (Putative PTS system EIIC component) (437 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = +2 Query: 334 APFFICMA 341 PFF+C+ Sbjct: 3332 GPFFLCLG 3355 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGCE_ECOLI P39362 Protein sgcE (5.1.3.-) (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +3 Query: 14 HYGRELTAL 22 HY ELT L Sbjct: 666 HYSMELTIL 692 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGCQ_ECOLI P39364 Putative sgc region protein sgcQ (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGCR_ECOLI P39361 Putative sgc region transcriptional regulator (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.96 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.96, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -3 Query: 123 ICNDIKIANELGCF 136 IC D+ ELG F Sbjct: 5633 ICTDLLFPPELGTF 5592 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = -2 Query: 173 FISCDALSL 181 I CDALSL Sbjct: 660 IIPCDALSL 634 Score = 16.2 bits (30), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +2 Query: 49 YPGMIRGHGCLD 60 + GM+R H C+ Sbjct: 6692 HQGMLRLHQCVH 6727 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGCX_ECOLI P39366 Putative sgc region protein sgcX (373 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +1 Query: 318 CASLSIPCRY 327 CAS++ CR+ Sbjct: 691 CASITARCRW 720 Score = 17.3 bits (33), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -2 Query: 177 KALDDRLGCTA 187 KAL R CT+ Sbjct: 1209 KALSSRAACTS 1177 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 274 ITPPRLIR 281 ITPP+L R Sbjct: 2270 ITPPKLPR 2247 Score = 16.5 bits (31), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +2 Query: 330 SPAEVASL 337 +PAEVAS+ Sbjct: 4736 APAEVASI 4759 Score = 16.2 bits (30), Expect(2) = 8.4, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +2 Query: 104 LTGDKGPVMGCIGIKSYH 121 +TG GP C+G + H Sbjct: 3317 MTGL*GPFFLCLGGEFVH 3370 Score = 15.4 bits (28), Expect(2) = 8.4, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +1 Query: 70 EVGFMVRKIEPSGFLRFER 88 E G +V E GFL FE+ Sbjct: 3259 E*GPVVSNPEFRGFLLFEK 3315 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGRR_ECOLI P33595 HTH-type transcriptional regulator sgrR (551 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 8/13 (61%) Frame = -1 Query: 118 GRHILRVLYYRPL 130 G HI LYY PL Sbjct: 2494 GHHIKNALYYVPL 2456 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SGRT_ECOLI C1P5Z7 Putative inhibitor of glucose uptake transporter sgrT (43 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.1 bits (22), Expect = 8.1, Method: Composition-based stats. Identities = 7/27 (25%), Positives = 12/27 (44%) Frame = -1 Query: 7 HYFTATAKLCWLRWLSVPQRLTMLEGL 33 HY K+ + P+R + +GL Sbjct: 496 HYIFLAIKIVNPHFSRHPRRASD*QGL 416 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SHIA_ECOLI P76350 Shikimate transporter (438 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = -1 Query: 88 GDRLGRKRMLMLTVWM 103 GD+L + +L T+W+ Sbjct: 5440 GDQLKLRSLLPATLWL 5393 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +1 Query: 317 RVYITGTLIGTLSAFP 332 R T + +GT+ FP Sbjct: 730 RHSATNSTLGTIKGFP 777 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SIEB_ECOLI P38392 Superinfection exclusion protein B (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SIRB1_ECOLI P0AGM5 Protein sirB1 (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -2 Query: 13 PLCEGMILACEAI 25 P C G I+ C+A+ Sbjct: 678 PCCNGRIIPCDAL 640 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -2 Query: 259 NNIAHKHIVL 268 NNI+HK +++ Sbjct: 555 NNISHKTLII 526 Score = 16.2 bits (30), Expect = 8.2, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 2/28 (7%) Frame = +1 Query: 196 QMELALRTSEALLQFNPEDPYE--IRDR 221 QME L +EAL++ P E IR+R Sbjct: 1810 QMERLLSDNEALVKRLEMIPIECVIRNR 1893 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SIRB2_ECOLI Q46755 Protein sirB2 (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SIXA_ECOLI P76502 Phosphohistidine phosphatase sixA (3.1.3.-) (RX6) (161 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.68, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 13/31 (41%) Frame = -1 Query: 19 SVRPLTTNGCDESRLMANWLKGQKVEIERVL 49 SV GCD L+ W + ERV+ Sbjct: 6148 SVW*FYFPGCDYGDLLQPWHHFHLLLPERVV 6056 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = +1 Query: 107 SHLPLVGYLVAELCPGETPPMFTTS 131 SH+ + +AEL G+ ++TT Sbjct: 1594 SHIEMQK--LAELYRGKAKTVYTTE 1662 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SKP_ECOLI P0AEU7 Chaperone protein skp (Seventeen kilodalton protein) (Histone-like protein HLP-1) (DNA-binding 17 kDa protein) (Precursor) (161 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.092 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.092, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = -2 Query: 26 IVNMGSLFQQVAQKTGVSNTL 46 I+N SLF K G+S+ L Sbjct: 6987 IINPCSLFS*YVNKWGISSPL 6925 Score = 16.2 bits (30), Expect = 4.6, Method: Compositional matrix adjust. Identities = 11/44 (25%), Positives = 18/44 (40%) Frame = -2 Query: 31 SLFQQVAQKTGVSNTLENEFKGRASELQRMETDLQAKMKKLQSM 74 S F VA +SN + +GR L+ T + + L + Sbjct: 3957 SCFFLVAVANAISNASKIFSRGRDFSLETASTTARISLFILSCL 3826 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SLMA_ECOLI P0C093 HTH-type protein slmA (Synthetically lethal with a defective Min system protein A) (Protein ttk) (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 12/26 (46%) Frame = -2 Query: 57 RMFDSLIEFIEDSLITRINLILKDEK 82 R+F I LIT+ + I K K Sbjct: 2220 RLFIPQATAIGGKLITQGDFIFKQAK 2143 Score = 16.2 bits (30), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 125 INQLFERIEAQL 136 INQ+ ++ AQL Sbjct: 6385 INQVIDQETAQL 6420 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SLP_ECOLI P37194 Outer membrane protein slp (Precursor) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SLT_ECOLI P0AGC3 Soluble lytic murein transglycosylase (4.2.2.n1) (Peptidoglycan lytic exotransglycosylase) (Slt70) (Exomuramidase) (Precursor) (645 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +2 Query: 173 WRASGKQDP 181 W A G QDP Sbjct: 1355 WDALGAQDP 1381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SLYA_ECOLI P0A8W2 Transcriptional regulator slyA (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.7, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +3 Query: 36 TLHNIHQLP 44 T+H H+LP Sbjct: 831 TIHYGHKLP 857 Score = 15.0 bits (27), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +3 Query: 117 GISAEELEQLIT 128 G+S LEQ +T Sbjct: 3354 GVSLSTLEQKLT 3389 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SLYB_ECOLI P0A905 Outer membrane lipoprotein slyB (Precursor) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SLYD_ECOLI P0A9K9 FKBP-type peptidyl-prolyl cis-trans isomerase slyD (PPIase) (Rotamase) (5.2.1.8) (Histidine-rich protein) (WHP) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.040 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.040, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 18/31 (58%) Frame = -3 Query: 16 RTEDGVLVDESPVSAPLDYLHGHGSLISGLE 46 R E+ +E+P+SAPL + S IS +E Sbjct: 2642 RVEEAPAPNEAPISAPLPCCNTI-SAISPIE 2553 Score = 16.5 bits (31), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 74 NLVQRVPKDVFMG 86 NL+ D+F+G Sbjct: 982 NLITACKGDIFIG 944 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SLYX_ECOLI P0A8R4 Protein slyX (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SMF_ECOLI P30852 Protein smf (374 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SMG_ECOLI P0A828 Protein smg (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 12/21 (57%) Frame = +1 Query: 47 LEKLADYQEGLAEPMQLASDP 67 ++KLA+ G A+ + DP Sbjct: 1606 MQKLAELYRGKAKTVYTTEDP 1668 Score = 16.2 bits (30), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 86 RGFLLF 91 RGFLLF Sbjct: 3292 RGFLLF 3309 Score = 15.4 bits (28), Expect = 6.7, Method: Composition-based stats. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +3 Query: 124 KWVIL 128 KWVIL Sbjct: 1410 KWVIL 1424 Score = 15.0 bits (27), Expect = 8.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 86 RGFLLFLE 93 + FLLFLE Sbjct: 5147 QNFLLFLE 5124 Score = 15.0 bits (27), Expect = 9.2, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = +3 Query: 124 KWVILMVLFNI 134 KW++ + +NI Sbjct: 1050 KWLLRISRYNI 1082 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SMPA_ECOLI P0A937 Small protein A (Precursor) (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.15 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.15, Method: Composition-based stats. Identities = 12/37 (32%), Positives = 17/37 (45%) Frame = -1 Query: 74 FYVFRQQPGHEGVTQQTLTLTFNSSGVLTNIDNKPAL 110 FY QQP L L++ + VL N+ +P L Sbjct: 5977 FYALLQQP------VSRLLLSYGALLVLQNVSVQPLL 5885 Score = 19.2 bits (38), Expect = 0.34, Method: Composition-based stats. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +1 Query: 53 QQVAYALGTPLMSDPFGTN 71 +QVA +G PL PF N Sbjct: 2281 EQVAKRIGVPLA--PFSDN 2331 Score = 16.5 bits (31), Expect = 2.1, Method: Composition-based stats. Identities = 8/36 (22%), Positives = 16/36 (44%) Frame = -3 Query: 74 FYVFRQQPGHEGVTQQTLTLTFNSSGVLTNIDNKPA 109 F ++QP E + + + + + L + KPA Sbjct: 2216 FLSHKRQPSGENSSPKVILFSNKPNSSLKSTRIKPA 2109 Score = 14.2 bits (25), Expect = 10.0, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 29 RPDINQ 34 PD+NQ Sbjct: 3140 EPDLNQ 3123 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SMP_ECOLI P0AGC7 Protein smp (Precursor) (214 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = +2 Query: 22 LLVALMQGASWFSQNHQRQRNPQL 45 +L A A W S +R NP++ Sbjct: 3050 VLFATFSDAGWSSLVARRAHNPKV 3121 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SMTA_ECOLI P36566 Protein smtA (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect(2) = 1.8, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = +1 Query: 59 AIKMAERGHQVI 70 A KMA +G QVI Sbjct: 6316 ANKMAVKGSQVI 6351 Score = 16.5 bits (31), Expect(2) = 1.8, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 64 ERGHQVIL 71 E GH+VIL Sbjct: 6430 EMGHKVIL 6453 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SODC_ECOLI P0AGD1 Superoxide dismutase [Cu-Zn] (1.15.1.1) (Bacteriocuprein) (Precursor) (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -1 Query: 67 HIHAKGSCQPAT 78 H H K +C P + Sbjct: 2971 HYHLKVACLPIS 2936 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SODF_ECOLI P0AGD3 Superoxide dismutase [Fe] (1.15.1.1) (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SODM_ECOLI P00448 Superoxide dismutase [Mn] (1.15.1.1) (MnSOD) (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.36, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 11/16 (68%) Frame = +3 Query: 90 KKGTTLQGDLKAAIER 105 KKG LQ LK ++ER Sbjct: 4269 KKGKLLQLPLKKSVER 4316 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SOHA_ECOLI P15373 HtrA suppressor protein (Protein prlF) (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.45, Method: Composition-based stats. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = -3 Query: 85 RPFNIQQGKKLVAGMDVNIDDE 106 R FNI G LVA + +I+ + Sbjct: 3563 RLFNI*HGTHLVANICTHINGD 3498 Score = 15.0 bits (27), Expect = 5.7, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = -2 Query: 61 QEDHTMNAFLR 71 + + T+N F+R Sbjct: 2370 KRNFTLNLFIR 2338 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SOHB_ECOLI P0AG14 Probable protease sohB (3.4.21.-) (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +2 Query: 190 IVSAPFAIV 198 IV AP+AIV Sbjct: 1220 IVRAPYAIV 1246 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 14/30 (46%) Frame = +1 Query: 215 KSKDIDIELHTAGQYKRTLTLLGENTEEGR 244 KSK + IE+ Y T NTE+ + Sbjct: 5614 KSKSVQIEIRRKRTYINTPNAELANTEKAK 5703 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SOPA_ECOLI P62556 Protein sopA (Plasmid partition protein A) (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SOPB_ECOLI P62558 Protein sopB (Plasmid partition protein B) (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -2 Query: 3 RAPVIPKH 10 RAP IP H Sbjct: 4644 RAPRIPTH 4621 Score = 16.5 bits (31), Expect = 8.5, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 102 QTPAFG 107 QTP+FG Sbjct: 3278 QTPSFG 3295 Score = 16.2 bits (30), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -2 Query: 196 CINTAKLPKSVVALFS 211 C N +P ++LFS Sbjct: 675 CCNGRIIPCDALSLFS 628 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SOTB_ECOLI P31122 Sugar efflux transporter (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 15/43 (34%), Positives = 21/43 (48%) Frame = -3 Query: 107 SRIGVAFAHAIFWSITASLAIRMAPAGKRAQALSLIATGTALA 149 S IG+ F AIF+++ + ALSL A +ALA Sbjct: 5834 STIGLLFVSAIFFAL-------------ASFALSLFACSSALA 5745 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +2 Query: 384 FRRWPVTLE 392 FRRW V E Sbjct: 4013 FRRWKVVSE 4039 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SOXR_ECOLI P0ACS2 Redox-sensitive transcriptional activator soxR (154 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.070 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.070, Method: Composition-based stats. Identities = 7/11 (63%), Positives = 11/11 (100%) Frame = +1 Query: 61 KIAQRIGIPLA 71 ++A+RIG+PLA Sbjct: 2284 QVAKRIGVPLA 2316 Score = 16.2 bits (30), Expect = 3.7, Method: Composition-based stats. Identities = 10/30 (33%), Positives = 15/30 (50%) Frame = +1 Query: 75 EAFGVLPEGHTLSAKEWKQLSSQWREELDR 104 +AFG E H + K+LS Q + L + Sbjct: 2017 KAFGWASEAHL---AQMKKLSYQVNDVLSK 2097 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SOXS_ECOLI P0A9E2 Regulatory protein soxS (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPEA_ECOLI P21170 Biosynthetic arginine decarboxylase (ADC) (4.1.1.19) (658 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.3, Method: Compositional matrix adjust. Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 3/37 (8%) Frame = +2 Query: 14 GEHGV--LRSMQEVAMSSQEASKM-LRTYNIAWWGNN 47 E GV L ++E + ++A K+ + NI W+G+N Sbjct: 5249 AEQGVSDLADIEE--LDDEKAGKLIMAARNICWFGDN 5353 Score = 20.4 bits (41), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 12/24 (50%) Frame = +3 Query: 433 IGYSSGIFSLQERAWAEQLYLSMC 456 +G +F L +W E + +S C Sbjct: 4626 LGCGEHVFKLCLTSWGENVLISFC 4697 Score = 19.2 bits (38), Expect = 2.4, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = -1 Query: 73 AQLVKTREAQGQRLPALFC 91 A++V +A QRL LFC Sbjct: 6907 AEIVLF*DALDQRLVYLFC 6851 Score = 18.9 bits (37), Expect = 3.6, Method: Compositional matrix adjust. Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 3/46 (6%) Frame = +2 Query: 166 RSVIVCNGYKDREYIRLALIG---EKMGHKVYLVIEKMSEIAIVLD 208 + VIV K RE R +I E+ G V ++K+S +I+LD Sbjct: 4202 KQVIV---QKVREAERAVVIEQFREQEGKIVTATVKKVSRESIILD 4330 Score = 18.1 bits (35), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 449 EQLYLSMCHEV 459 +QLY +CH V Sbjct: 5409 QQLYGYICHAV 5377 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPEB_ECOLI P60651 Agmatinase (3.5.3.11) (Agmatine ureohydrolase) (AUH) (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPED_ECOLI P0A7F6 S-adenosylmethionine decarboxylase proenzyme (AdoMetDC) (SAMDC) (4.1.1.50) (S-adenosylmethionine decarboxylase beta chain) (S-adenosylmethionine decarboxylase alpha chain) (Precursor) (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 4/39 (10%) Frame = +1 Query: 206 NVYQENIFHTKMLLK----EFDLKHYMFHTKPEDLTDSE 240 N + +N F + L + +FDLK ++ P D E Sbjct: 3145 NHF*KNFFQIRYLER*TDIDFDLKKHLSEVMPRDSFSGE 3261 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -3 Query: 142 VISPLKALNYL 152 VISPLK ++L Sbjct: 1028 VISPLKQADFL 996 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 6/33 (18%) Frame = -3 Query: 76 ASVTILVSEEPVDPKLIDKTEHP------GPLP 102 A + ++ EP+DP +++ P PLP Sbjct: 2687 AVIRVIKLPEPLDPNRVEEAPAPNEAPISAPLP 2589 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = -1 Query: 124 PEGGLCTFRAD 134 P GG C F + Sbjct: 5884 PHGGSCHFVVE 5852 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPEE_ECOLI P09158 Spermidine synthase (2.5.1.16) (Putrescine aminopropyltransferase) (PAPT) (SPDSY) (288 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = +2 Query: 198 QQEEAIDSHRKLSHY 212 QQE+ + S+ ++ HY Sbjct: 1040 QQEKMVTSNIEIQHY 1084 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +1 Query: 159 CTDPIG 164 C DPIG Sbjct: 2485 CGDPIG 2502 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 71 PLLAHGHAKHVLI 83 PLL HG + H ++ Sbjct: 5893 PLLPHGGSCHFVV 5855 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPOT_ECOLI P0AG24 Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (3.1.7.2) (Penta-phosphate guanosine-3'-pyrophosphohydrolase) ((ppGpp)ase) (702 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +3 Query: 490 LNHALGGSRKLN 501 NH + GSR LN Sbjct: 5391 CNHKVAGSRDLN 5426 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPPA_ECOLI P08395 Protease 4 (3.4.21.-) (Protease IV) (Endopeptidase IV) (Signal peptide peptidase) (618 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 338 MDGEETQGNVGG 349 MD + +GN+GG Sbjct: 2230 MDKDRFRGNLGG 2265 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPRT_ECOLI P39902 Protein sprT (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.66, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 14/33 (42%) Frame = -2 Query: 19 REKLAQANLKLGRNYPEPKLSYTQRGTSAGTAW 51 R KLA+ N K PKLS R T W Sbjct: 5196 RSKLAKFN-KSSAGLLSPKLSSFFRANVVSTFW 5101 Score = 18.1 bits (35), Expect = 1.3, Method: Composition-based stats. Identities = 10/25 (40%), Positives = 11/25 (44%), Gaps = 10/25 (40%) Frame = +2 Query: 101 WMMENVL----------GVPARRTH 115 WMM NVL + ARR H Sbjct: 3035 WMMINVLFATFSDAGWSSLVARRAH 3109 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPR_ECOLI P0AFV4 Lipoprotein spr (Precursor) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.9, Method: Compositional matrix adjust. Identities = 13/61 (21%), Positives = 28/61 (45%) Frame = +2 Query: 20 VAVLLSACSANNTAKNMHPETRAVGSETSSLQASQDEFENLVRNVDVKSRIMDQYADWKG 79 +AV+ + + + + E + T++ + + E E V N+D K+ + + WK Sbjct: 3854 LAVVEAVSNEKSLPREKIFEALEIALATATKKKHEQEIEVRV-NIDRKTGDFETFRRWKV 4030 Query: 80 V 80 V Sbjct: 4031 V 4033 Score = 15.8 bits (29), Expect = 6.5, Method: Compositional matrix adjust. Identities = 12/39 (30%), Positives = 16/39 (41%) Frame = -1 Query: 147 GIYIGNNQFVHASTSSGVIISSMNEPYWKKRYNEARRVL 185 G Y N FVH + +N W R+ A R+L Sbjct: 3871 GFYNSQNLFVHPK------LPRLNF*KWGARF--ALRIL 3779 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SPY_ECOLI P77754 Spheroplast protein Y (Precursor) (161 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%), Gaps = 1/15 (6%) Frame = +1 Query: 119 HMETQNKIYNIL-TP 132 H+ET+N + L TP Sbjct: 6652 HVETENGMVTFLDTP 6696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SRA_ECOLI P68191 Stationary-phase-induced ribosome-associated protein (SRA) (Protein D) (30S ribosomal protein S22) (45 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SRLD_ECOLI P05707 Sorbitol-6-phosphate 2-dehydrogenase (1.1.1.140) (Glucitol-6-phosphate dehydrogenase) (Ketosephosphate reductase) (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.12, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 8/11 (72%) Frame = -1 Query: 115 GYFLCAREFSR 125 YFLC R FSR Sbjct: 5824 AYFLCQRFFSR 5792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SRLR_ECOLI P15082 Glucitol operon repressor (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -2 Query: 61 EESDPPIDHKTLI 73 E++ I HKTLI Sbjct: 567 EQAANNISHKTLI 529 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SRMB_ECOLI P21507 ATP-dependent RNA helicase srmB (3.6.1.-) (444 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 10/20 (50%) Frame = +1 Query: 179 RWRKQTLLFSATLEGDAIQD 198 +W K TL FSA G D Sbjct: 4831 QWSKCTLSFSAEWLGT*CDD 4890 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SRNB_ECOLI P13970 Protein srnB (68 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.4, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +2 Query: 28 LLAVCAT 34 LLA C+T Sbjct: 551 LLAACST 571 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SRP54_ECOLI P0AGD7 Signal recognition particle protein (Fifty-four homolog) (p48) (453 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSBF_ECOLI P18310 Plasmid-derived single-stranded DNA-binding protein (SSB) (Helix-destabilizing protein) (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.4, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = +1 Query: 120 TQPEEGQQFSGQPQPE 135 +QP + ++ S P+P Sbjct: 2779 SQPAKDEKISAPPKPS 2826 Score = 15.8 bits (29), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +3 Query: 6 INKVILVGRLG 16 + KVIL RLG Sbjct: 4797 LKKVILHKRLG 4829 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSB_ECOLI P0AGE0 Single-stranded DNA-binding protein (SSB) (Helix-destabilizing protein) (178 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.7, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +2 Query: 173 DDDIPF 178 D+D+PF Sbjct: 947 DEDVPF 964 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSEB_ECOLI P0AFZ1 Protein sseB (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 24 AFFRTLLESTVWV 36 +FFR + ST W Sbjct: 5136 SFFRANVVSTFWA 5098 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -2 Query: 220 CQVKKGEKGISH 231 C V++ ISH Sbjct: 576 CSVEQAANNISH 541 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSNA_ECOLI Q46812 Protein ssnA (442 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 5/8 (62%) Frame = -1 Query: 58 IVCSHNHF 65 C HNHF Sbjct: 4060 FTCWHNHF 4037 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSPA_ECOLI P0ACA3 Stringent starvation protein A (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.0, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 16/35 (45%) Frame = +1 Query: 121 SASEADAARKQLREELLAIAPVFGQKPYFLSDEFS 155 S S+AD REE A+ +KP L F+ Sbjct: 6166 SESKAD------REEARAVGRKSKRKPSTLQQSFN 6252 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSPB_ECOLI P0AFZ3 Stringent starvation protein B (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSRP_ECOLI P0A832 SsrA-binding protein (Small protein B) (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 7/21 (33%) Frame = -3 Query: 64 FLF-------GANITPMAVAS 77 FLF GAN TP+ +A+ Sbjct: 2348 FLFADTLSEKGANGTPIRLAT 2286 Score = 16.2 bits (30), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -2 Query: 7 HKPGSATIALNKRARH 22 H PGS + +R RH Sbjct: 3540 HSPGS*HLHTYQR*RH 3493 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSTT_ECOLI P0AGE4 Serine/threonine transporter sstT (Na(+)/serine-threonine symporter) (414 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.42, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 14/27 (51%) Frame = +2 Query: 129 MRGLVMSMVSNPIDALLKGNYIGILVW 155 MRG + VSN L G I I++W Sbjct: 4631 MRGARVQAVSNE----LGGERIDIVLW 4699 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -3 Query: 257 SGVYAFFTRSSAANIP 272 SG+ F R ++ N+P Sbjct: 311 SGIKRSFKRPASVNLP 264 Score = 17.7 bits (34), Expect = 4.4, Method: Compositional matrix adjust. Identities = 9/39 (23%), Positives = 18/39 (46%) Frame = +2 Query: 118 DISPPSGIVEVMRGLVMSMVSNPIDALLKGNYIGILVWA 156 DI PP + +++G + ++ LL N +W+ Sbjct: 731 DIRPPIQPLVLLKGSRIESTADISKLLLDNNRQNDTLWS 847 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSUA_ECOLI P75853 Putative aliphatic sulfonates-binding protein (Precursor) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSUB_ECOLI P0AAI1 Aliphatic sulfonates import ATP-binding protein ssuB (3.6.3.-) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSUC_ECOLI P75851 Putative aliphatic sulfonates transport permease protein ssuC (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = +3 Query: 6 KKWLLRVAPWFLPV 19 KKWLLR++ + + + Sbjct: 1047 KKWLLRISRYNITI 1088 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +2 Query: 243 QLLERLWLRWNPA 255 Q L W++WN A Sbjct: 908 QTLTTDWIKWNRA 946 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSUD_ECOLI P80645 Alkanesulfonate monooxygenase (1.14.14.5) (FMNH2-dependent aliphatic sulfonate monooxygenase) (Sulfate starvation-induced protein 6) (SSI6) (381 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +3 Query: 16 HYLGTEEGSR 25 HYL T GSR Sbjct: 6048 HYLTTRSGSR 6077 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SSUE_ECOLI P80644 FMN reductase (1.5.1.29) (Sulfate starvation-induced protein 4) (SSI4) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -1 Query: 148 HHRPQ 152 HHRPQ Sbjct: 6778 HHRPQ 6764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= STFE_ECOLI P33227 Putative protein stfE (Side tail fiber protein homolog from lambdoid prophage e14) (Fragment) (166 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 9.3, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +3 Query: 39 YPELAKAYPT 48 YP+L +PT Sbjct: 1209 YPDLLYEHPT 1238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= STFQ_ECOLI P77515 Side tail fiber protein homolog from lambdoid prophage Qin (320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 12/20 (60%) Frame = -1 Query: 220 NTSIFPNGYTAISNLSAGIM 239 NTS FP+ T I + S +M Sbjct: 3769 NTSSFPSTVTMIISPSTALM 3710 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = -2 Query: 66 RRDTTDANWS 75 R TTD WS Sbjct: 4182 RSKTTDLIWS 4153 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= STFR_ECOLI P76072 Side tail fiber protein homolog from lambdoid prophage Rac (1120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 9.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 9.0, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 11/21 (52%) Frame = +1 Query: 473 SATNSTSETLAATPKAVKSAY 493 SATNST T+ P V Y Sbjct: 736 SATNSTLGTIKGFPDRVHC*Y 798 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= STHA_ECOLI P27306 Soluble pyridine nucleotide transhydrogenase (STH) (1.6.1.1) (NAD(P)(+) transhydrogenase [B-specific]) (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= STPA_ECOLI P0ACG1 DNA-binding protein stpA (H-NS homolog stpA) (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.4, Method: Composition-based stats. Identities = 10/30 (33%), Positives = 14/30 (46%) Frame = -1 Query: 78 NSSAAAPRAGKKRQPRPAKYKFTDVNGETK 107 N P+A KKR P+ + N ET+ Sbjct: 3373 NVDKLTPKA*KKRAL*PSHFFQITKNPETR 3284 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUBI_ECOLI P0AG78 Sulfate-binding protein (Sulfate starvation-induced protein 2) (SSI2) (Precursor) (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 10/23 (43%) Frame = +3 Query: 101 WIKRLPDNSAPYTSTIVFLVRKG 123 W ++L D Y I+F G Sbjct: 2655 WFRQLYDPYDRYIGDIIFYC*SG 2723 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +3 Query: 38 QYNKAFSAHWK 48 QY++ +HWK Sbjct: 60 QYHRVKRSHWK 92 Score = 16.5 bits (31), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 121 RKGNPKQIH 129 R+G KQIH Sbjct: 6538 RRGRVKQIH 6512 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUCC_ECOLI P0A836 Succinyl-CoA ligase [ADP-forming] subunit beta (6.2.1.5) (Succinyl-CoA synthetase subunit beta) (SCS-beta) (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.53, Method: Compositional matrix adjust. Identities = 18/75 (24%), Positives = 39/75 (52%), Gaps = 9/75 (12%) Frame = +1 Query: 162 ELAFKLGLEGKLVQQFTKIFMGLATI--FLERDLALI---EI-NPLVITKQGDL---ICL 212 ELA K+ ++G V + G+ATI ++++ A + E+ + +++ ++ +L + Sbjct: 6310 ELANKMAVKGSQVIKTMMKLGGMATINQVIDQETAQLVAEEMGHKVILRRENELEEALMS 6489 Query: 213 DGKLGADGNALFRQP 227 D +G G + R P Sbjct: 6490 DRDMGVAGESALRAP 6534 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -1 Query: 11 LFARYGLPAP 20 L RYG PAP Sbjct: 1705 LMYRYGTPAP 1676 Score = 16.9 bits (32), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = -2 Query: 212 LDGKLGADGNALFRQPDLR 230 + GKL G+ +F+Q + Sbjct: 2193 IGGKLITQGDFIFKQAKFQ 2137 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUCD_ECOLI P0AGE9 Succinyl-CoA ligase [ADP-forming] subunit alpha (6.2.1.5) (Succinyl-CoA synthetase subunit alpha) (SCS-alpha) (289 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.36, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = -3 Query: 136 GIQPGHIHKPGKV 148 G+Q GH+H+ G + Sbjct: 971 GLQRGHLHRLGSI 933 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 2/21 (9%) Frame = +1 Query: 266 LEAAGVKTV--RSLADIGEAL 284 LEAAG+ T R L+D EAL Sbjct: 1786 LEAAGIPTQMERLLSD-NEAL 1845 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUCP_ECOLI P76041 Putative sucrose phosphorylase (2.4.1.7) (Sucrose glucosyltransferase) (559 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.069 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.069, Method: Compositional matrix adjust. Identities = 14/31 (45%), Positives = 19/31 (61%), Gaps = 2/31 (6%) Frame = -1 Query: 460 NDEATL--RHAVYHELSRLITLRRSHNEFHP 488 ND + L RH+V +ELSR+I + N F P Sbjct: 4762 NDRSYLSWRHSVKNELSRIIIPQNDINTFSP 4670 Score = 19.2 bits (38), Expect = 2.0, Method: Compositional matrix adjust. Identities = 20/82 (24%), Positives = 34/82 (41%) Frame = -2 Query: 190 WTTFSDDQIDLNYRSPEVLLAMVDVLLCYLAKGAEYVRLDAVGFMWKEPGTSCIHLEKTH 249 WT F+ ++I + +D+ L + + L+ V EP T + + Sbjct: 3270 WTLFAAERIPRHDFR*MFFQIKIDISLSL*ISYLKKIFLEVVA*AGFEPATFGL*ARRAT 3091 Query: 250 LIIKLLRSIIDNVAPGTVIITE 271 KLL +NVA T+II + Sbjct: 3090 ---KLLHPASENVANSTLIIIQ 3034 Score = 18.5 bits (36), Expect = 3.7, Method: Compositional matrix adjust. Identities = 11/26 (42%), Positives = 14/26 (53%) Frame = +2 Query: 346 RGLLPESEILELVEALQQEGALVNWK 371 R L EIL +VEA+ E +L K Sbjct: 3827 RQLRMNKEILAVVEAVSNEKSLPREK 3904 Score = 18.5 bits (36), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = -1 Query: 238 PGTSCIHLEKTHLIIKLLRSI 258 P T +HL +++LLR I Sbjct: 5410 PATLWLHLSCCSFLLQLLRII 5348 Score = 16.9 bits (32), Expect = 9.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 200 LNYRSPEVLLA 210 +NY SP+ LL Sbjct: 5311 INYGSPQYLLV 5343 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUFA_ECOLI P77667 Protein sufA (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 67 DLLFEH 72 DLL+EH Sbjct: 1215 DLLYEH 1232 Score = 15.4 bits (28), Expect = 5.4, Method: Composition-based stats. Identities = 4/10 (40%), Positives = 9/10 (90%) Frame = +1 Query: 58 DSVSEPDKDD 67 +++S+P KD+ Sbjct: 2770 ENLSQPAKDE 2799 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUFB_ECOLI P77522 Protein sufB (495 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 15/22 (68%) Frame = -1 Query: 458 AISMIVNGFCKDVFSELPLEFA 479 A++ +NG + ++ +LP++ A Sbjct: 307 ALNAHLNGLLR*IYLQLPVDKA 242 Score = 17.3 bits (33), Expect = 6.5, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 14/34 (41%) Frame = +2 Query: 143 DAIFDSVSVATTYREKLAEQGIIFCSFGEAIHDH 176 D F + E LAEQG+ + E + D Sbjct: 5198 DMAFKLAACGVCTLEDLAEQGVSDLADIEELDDE 5299 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUFC_ECOLI P77499 Probable ATP-dependent transporter sufC (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUFD_ECOLI P77689 Protein sufD (423 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +1 Query: 294 FCNSRQLHKTIVSD 307 F + QLH IVS+ Sbjct: 1966 FLKNDQLHDPIVSE 2007 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUFE_ECOLI P76194 Cysteine desulfuration protein sufE (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.55, Method: Composition-based stats. Identities = 8/23 (34%), Positives = 14/23 (60%) Frame = +2 Query: 8 EKLLRNFLRCANWEEKYLYIIEL 30 +K+L + R NW +YL ++ L Sbjct: 2906 KKMLSSIPRW*NW*TRYLEVVVL 2974 Score = 18.9 bits (37), Expect = 0.60, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 54 QVWIVMRQNAQGII 67 VW+VMR +I Sbjct: 4200 AVWVVMRSKTTDLI 4159 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUFI_ECOLI P26648 Protein sufI (Precursor) (470 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.66, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +3 Query: 47 PLFMTVQRAHWSF 59 P + V+R+HW F Sbjct: 57 PQYHRVKRSHWKF 95 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUFS_ECOLI P77444 Cysteine desulfurase (2.8.1.7) (Selenocysteine lyase) (4.4.1.16) (Selenocysteine reductase) (Selenocysteine beta-lyase) (SCL) (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUGE_ECOLI P69937 Quaternary ammonium compound-resistance protein sugE (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 8.6, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 8/9 (88%) Frame = +2 Query: 8 IAGLLEVVW 16 +AGL++ +W Sbjct: 2024 LAGLVKRIW 2050 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUHB_ECOLI P0ADG4 Inositol-1-monophosphatase (IMPase) (Inositol-1-phosphatase) (I-1-Pase) (3.1.3.25) (267 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -1 Query: 24 ETPDAVEASQKGSNDFV 40 +T + ASQ GSN + Sbjct: 1630 DTTRLIFASQYGSNSVI 1580 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SULA_ECOLI P0AFZ5 Cell division inhibitor sulA (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SUPH_ECOLI P75792 Sugar phosphatase supH (3.1.3.23) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SURA_ECOLI P0ABZ6 Chaperone surA (Peptidyl-prolyl cis-trans isomerase surA) (PPIase surA) (Rotamase surA) (5.2.1.8) (Survival protein A) (Precursor) (428 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SURE_ECOLI P0A840 Multifunctional protein surE (Stationary-phase survival protein surE) (5'/3'-nucleotidase) (3.1.3.5) (3.1.3.6) (Nucleoside monophosphate phosphohydrolase) (Exopolyphosphatase) (3.6.1.11) (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SXY_ECOLI P75869 Protein sxy (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -2 Query: 150 KMCWLRLRQQNSLVTE 165 K C + QQN ++T Sbjct: 171 KTCRIITAQQNKIITN 124 Score = 16.2 bits (30), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 153 WLRLRQQ 159 +LRLRQQ Sbjct: 4781 FLRLRQQ 4761 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYA_ECOLI P00957 Alanyl-tRNA synthetase (6.1.1.7) (Alanine--tRNA ligase) (AlaRS) (876 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.8, Method: Compositional matrix adjust. Identities = 17/53 (32%), Positives = 25/53 (47%) Frame = +1 Query: 98 SFGDYFKHDAIQFAWELLTSEKWFALPKERLWVTVYESDDEAYEIWEKEVGIP 150 + GD F D + W+ T EK + K+R + EAYE K +G+P Sbjct: 2167 TLGDEFSPDGCRL-WDKKTLEK---MDKDRFRGNL-GGVIEAYEQVAKRIGVP 2310 Score = 19.2 bits (38), Expect = 3.7, Method: Composition-based stats. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -1 Query: 107 AIQFAWELLTSEKW 120 A+ F W LLT W Sbjct: 100 ALNFQWLLLTR*YW 59 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYC_ECOLI P21888 Cysteinyl-tRNA synthetase (6.1.1.16) (Cysteine--tRNA ligase) (CysRS) (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.33, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 13/22 (59%) Frame = +2 Query: 166 GARVDVVDDKRNPMDFVLWKMS 187 G R+D+V NP FVL M+ Sbjct: 4673 GERIDIVLWDDNPAQFVLNAMA 4738 Score = 21.2 bits (43), Expect = 0.40, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = -2 Query: 229 DLMFPHHENEIAQSTCAHDGQYVN 252 F + ++ STC H G+Y N Sbjct: 273 KFTFSYPLTKLRHSTCCHIGRY*N 202 Score = 20.0 bits (40), Expect = 0.89, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = +1 Query: 238 EIAQSTCAHDGQYVNYWMHSGMV 260 E T A DGQ + + GM+ Sbjct: 1684 EFRNDTSAMDGQRIQAFDRKGMI 1752 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 12/20 (60%) Frame = -2 Query: 59 YKLKYVRNITDIDDKIIKRA 78 YK+K R IT +KII A Sbjct: 180 YKIKTCRIITAQQNKIITNA 121 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYDP_ECOLI P0A8U0 Protein syd (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -1 Query: 23 EHKSWPLSEELYGVPSP 39 E+ PL YG P+P Sbjct: 1726 EYVDHPLLMYRYGTPAP 1676 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYD_ECOLI P21889 Aspartyl-tRNA synthetase (6.1.1.12) (Aspartate--tRNA ligase) (AspRS) (590 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +1 Query: 397 DNKKIVADAMGAL 409 DNK+ VAD + L Sbjct: 526 DNKRFVADVVSRL 564 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYE_ECOLI P04805 Glutamyl-tRNA synthetase (6.1.1.17) (Glutamate--tRNA ligase) (GluRS) (471 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -3 Query: 238 LSKRHGAVSVMQYR 251 + +RH AV + QYR Sbjct: 725 VCQRHLAVILAQYR 684 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYFA_ECOLI P08312 Phenylalanyl-tRNA synthetase alpha chain (6.1.1.20) (Phenylalanine--tRNA ligase alpha chain) (PheRS) (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.0, Method: Compositional matrix adjust. Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 5/52 (9%) Frame = +3 Query: 30 EYLGKKGHLTLQ--MTTLRELPPEERPAAGAVI---NEAKEQVQQALNARKA 76 +YLG++ +LTL+ M R+ + G +I + K++V N RKA Sbjct: 3639 DYLGERINLTLRIAMQNRRKWQGIIKAVDGEMIIVTVDGKDEVFALSNIRKA 3794 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYFB_ECOLI P07395 Phenylalanyl-tRNA synthetase beta chain (6.1.1.20) (Phenylalanine--tRNA ligase beta chain) (PheRS) (795 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 5.3, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = +1 Query: 36 EPVAGSFHGVVVGEVVECAQHPN 58 +PVA V++GE V A+ N Sbjct: 6253 KPVAVVNRDVIIGETVTVAELAN 6321 Score = 18.1 bits (35), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -3 Query: 198 TIDDTLPITV 207 ++DDTLP+T Sbjct: 3719 SLDDTLPLTT 3690 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYGA_ECOLI P00960 Glycyl-tRNA synthetase alpha subunit (6.1.1.14) (Glycine--tRNA ligase alpha subunit) (GlyRS) (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 122 ENPTLGAWGL 131 +NP + AW L Sbjct: 655 DNPAITAWNL 684 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = -2 Query: 6 TRTFQGLI 13 TRTFQG++ Sbjct: 465 TRTFQGIL 442 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYGB_ECOLI P00961 Glycyl-tRNA synthetase beta subunit (6.1.1.14) (Glycine--tRNA ligase beta subunit) (GlyRS) (689 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYH_ECOLI P60906 Histidyl-tRNA synthetase (6.1.1.21) (Histidine--tRNA ligase) (HisRS) (424 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 27 0.009 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 26.6 bits (57), Expect = 0.009, Method: Compositional matrix adjust. Identities = 16/45 (35%), Positives = 24/45 (53%) Frame = +2 Query: 105 LWYIGPMFRHERPQKGRYRQFHQLGCEVFGLQGPDIDAELIMLTA 149 L+ I P R PQ R ++ E+F ++ P+ID ELI + A Sbjct: 4418 LYEIRPEARG--PQLFISRSRPEMLIELFRIEVPEIDEELIEIKA 4546 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/31 (25%), Positives = 14/31 (45%) Frame = +3 Query: 175 ANYRDALVAFLEQHKEKLDEDCKRRMYTNPL 205 NY ++ + KL + CK R +P+ Sbjct: 801 VNYC*TIIVKTIHYGHKLPQ*CKTRASPSPI 893 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYI_ECOLI P00956 Isoleucyl-tRNA synthetase (6.1.1.5) (Isoleucine--tRNA ligase) (IleRS) (938 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.99 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.99, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 14/28 (50%) Frame = -2 Query: 288 TDYTILGTVKGAELELLRFTHPFMGFDV 315 T+Y I + L +RFT P GF V Sbjct: 2094 TEYIINLITQLFHLRQMRFTSPAKGFTV 2011 Score = 19.6 bits (39), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = +1 Query: 5 KSTLNLPETG 14 +STLN+P +G Sbjct: 5581 RSTLNVPSSG 5610 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYK1_ECOLI P0A8N3 Lysyl-tRNA synthetase (6.1.1.6) (Lysine--tRNA ligase) (LysRS) (505 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.27, Method: Compositional matrix adjust. Identities = 10/41 (24%), Positives = 23/41 (56%), Gaps = 9/41 (21%) Frame = +2 Query: 336 YRPETDMADLDNFDS---------AKAIAESIGIHVEKSWG 367 Y PE+++ ++D+FD A+ + ++ + E+S+G Sbjct: 5027 YVPESELPEIDSFDKKRLQELRDRAQNVLTTLALKKEESFG 5149 Score = 20.4 bits (41), Expect = 0.81, Method: Compositional matrix adjust. Identities = 13/55 (23%), Positives = 26/55 (47%), Gaps = 7/55 (12%) Frame = +2 Query: 56 KENEELEALNIEVAVAGRMMTRRIM-------GKASFVTLQDVGGRIQLYVARDD 103 ++ E++ NIE+ R M +++ ++ D GR+++ ARDD Sbjct: 1037 QQQEKMVTSNIEIQHYNRAMLNKLIEGLDKIRSNSNNAQNTDKIGRLEVQAARDD 1201 Score = 20.4 bits (41), Expect = 0.83, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -1 Query: 405 DVNPEITDRFEFFIG 419 D+NP+ F FF+G Sbjct: 3985 DINPDFNFLFMFFLG 3941 Score = 17.3 bits (33), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 137 SIHCTELRL 145 S++CT LRL Sbjct: 1452 SVNCTLLRL 1426 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYK2_ECOLI P0A8N5 Lysyl-tRNA synthetase, heat inducible (6.1.1.6) (Lysine--tRNA ligase) (LysRS) (505 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.51, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 12/14 (85%) Frame = +2 Query: 336 YRPETDMADLDNFD 349 Y PE+++ ++D+FD Sbjct: 5027 YVPESELPEIDSFD 5068 Score = 20.4 bits (41), Expect = 0.81, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -1 Query: 405 DVNPEITDRFEFFIG 419 D+NP+ F FF+G Sbjct: 3985 DINPDFNFLFMFFLG 3941 Score = 17.3 bits (33), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 137 SIHCTELRL 145 S++CT LRL Sbjct: 1452 SVNCTLLRL 1426 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYK3_ECOLI P0A8N7 Putative lysyl-tRNA synthetase (6.1.1.6) (Lysine--tRNA ligase) (LysRS) (GX) (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect(2) = 3.3, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 240 YKGIELANGFHE 251 +KG + NGF+ Sbjct: 3895 WKGFLIRNGFYN 3860 Score = 16.5 bits (31), Expect(2) = 3.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -3 Query: 287 LKVGMPDC 294 LKVG P C Sbjct: 3815 LKVGCPVC 3792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYL_ECOLI P07813 Leucyl-tRNA synthetase (6.1.1.4) (Leucine--tRNA ligase) (LeuRS) (860 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 5.8, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = -1 Query: 339 PGHDQRDYEFASKYGLN 355 P D FAS+YG N Sbjct: 1639 PFRDTTRLIFASQYGSN 1589 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYME_ECOLI P39394 Endoribonuclease symE (3.1.-.-) (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.26, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +3 Query: 46 WLEAAGFATG 55 W +++GF TG Sbjct: 2112 WFDSSGFQTG 2141 Score = 18.5 bits (36), Expect = 0.61, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 12/23 (52%) Frame = -3 Query: 66 CIVLTAQPPAAEESELMQSLRQV 88 C V+ PAA E MQS +V Sbjct: 6638 CCVIPPASPAATLVERMQSSNEV 6570 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYM_ECOLI P00959 Methionyl-tRNA synthetase (6.1.1.10) (Methionine--tRNA ligase) (MetRS) (677 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.42, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 12/20 (60%) Frame = +2 Query: 520 LLGHKVNPFKALYNRIDMRQ 539 LL K +ALYNR+ + Q Sbjct: 6200 LLAVKAKESQALYNRVSISQ 6259 Score = 20.4 bits (41), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 10/21 (47%) Frame = -1 Query: 304 LFWPAMLEGSNFRKPSNLFVH 324 L W L + F NLFVH Sbjct: 3901 LTWKGFLIRNGFYNSQNLFVH 3839 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYN_ECOLI P0A8M0 Asparaginyl-tRNA synthetase (6.1.1.22) (Asparagine--tRNA ligase) (AsnRS) (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -2 Query: 313 YTDAVTILENCGR 325 T AVTI +C R Sbjct: 4299 LTVAVTIFPSCSR 4261 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYP_ECOLI P16659 Prolyl-tRNA synthetase (6.1.1.15) (Proline--tRNA ligase) (ProRS) (Global RNA synthesis factor) (572 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 13/21 (61%) Frame = +1 Query: 262 TIAELVEQFNLPIEKTVKTLL 282 T+AEL + + + +KT++ Sbjct: 6301 TVAELANKMAVKGSQVIKTMM 6363 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYQ_ECOLI P00962 Glutaminyl-tRNA synthetase (6.1.1.18) (Glutamine--tRNA ligase) (GlnRS) (554 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYR_ECOLI P11875 Arginyl-tRNA synthetase (6.1.1.19) (Arginine--tRNA ligase) (ArgRS) (577 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 1/31 (3%) Frame = -2 Query: 493 EAQLAARLLQFEETLTV-VAREGTPHVMCAY 522 A AR+ F + V + + G P ++C Y Sbjct: 3873 TASTTARISLFILSCLV*IFKSGVPGLLCGY 3781 Score = 17.3 bits (33), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 147 EFLGHKVI 154 E +GHKVI Sbjct: 6427 EEMGHKVI 6450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYS_ECOLI P0A8L1 Seryl-tRNA synthetase (6.1.1.11) (Seryl-tRNA(Ser/Sec) synthetase) (Serine--tRNA ligase) (SerRS) (430 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 11/25 (44%) Frame = -3 Query: 206 GTGQLPKFAGDLFHTRPLEEEADTS 230 G+G LP F+ + A +S Sbjct: 6011 GSGHLPSFSAAILRASSATRFASSS 5937 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 412 RIEVPEV 418 RIEVPE+ Sbjct: 4499 RIEVPEI 4519 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYT_ECOLI P0A8M3 Threonyl-tRNA synthetase (6.1.1.3) (Threonine--tRNA ligase) (ThrRS) (642 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +3 Query: 196 FKLMKTAGAYW 206 KLMK+A +W Sbjct: 4959 LKLMKSAPQFW 4991 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYV_ECOLI P07118 Valyl-tRNA synthetase (6.1.1.9) (Valine--tRNA ligase) (ValRS) (951 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYW_ECOLI P00954 Tryptophanyl-tRNA synthetase (6.1.1.2) (Tryptophan--tRNA ligase) (TrpRS) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = -1 Query: 52 DAQKLRKATLDTLALYLAC 70 D KLR TL L+L+C Sbjct: 5437 DQLKLRSLLPATLWLHLSC 5381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= SYY_ECOLI P0AGJ9 Tyrosyl-tRNA synthetase (6.1.1.1) (Tyrosine--tRNA ligase) (TyrRS) (424 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= T1MK_ECOLI P08957 Type I restriction enzyme EcoKI M protein (M.EcoKI) (2.1.1.72) (529 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 14/35 (40%) Frame = -2 Query: 259 KAHIVATNPPFGSAAGTNITRTFVHPTSNKQLCFM 293 +HI T+ F T H SN+ CF+ Sbjct: 6507 HSHIAITHQCFFEFIFTTQDNFMTHFFSNQLRCFL 6403 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= T1RK_ECOLI P08956 Type I restriction enzyme EcoKI R protein (R.EcoKI) (3.1.21.3) (1188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= T1SK_ECOLI P05719 Type-1 restriction enzyme EcoKI specificity protein (S.EcoKI) (Type I restriction enzyme EcoKI specificity protein) (S protein) (464 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.18, Method: Compositional matrix adjust. Identities = 12/45 (26%), Positives = 23/45 (51%) Frame = +1 Query: 229 ESILTELRNGLSSKPNESGVGHPILRISSVRAGHVDQNDIRFLEC 273 E+++++ G++ ES + P++ I GHVD L+C Sbjct: 6475 EALMSDRDMGVA---GESALRAPVVTI----MGHVDHGKTSLLDC 6588 Score = 19.6 bits (39), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +3 Query: 42 PLIRANNIQNGK 53 PL+R NN+ N K Sbjct: 558 PLVRQNNVINAK 593 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 10/22 (45%) Frame = -1 Query: 98 LPFECSFGAFCGVLRPEKLIFS 119 L C FC +R KLI S Sbjct: 3715 LMIPCHLRRFCIAIRNVKLILS 3650 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 18/32 (56%), Gaps = 2/32 (6%) Frame = +1 Query: 414 LAKAFRGELTAQWRAENPDLISGE--NSAAAL 443 LA+ +RG+ + E+P+ + E N +A+ Sbjct: 1615 LAELYRGKAKTVYTTEDPNYLVLEFRNDTSAM 1710 Score = 17.3 bits (33), Expect = 6.5, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%) Frame = +1 Query: 305 LLKKLQHQNLLYPDKLIRARLTKDAL 330 LL L+H+ P+KL R + L Sbjct: 5515 LLAHLKHEPGQVPNKLTLQRKIRSTL 5592 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TADA_ECOLI P68398 tRNA-specific adenosine deaminase (3.5.4.-) (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.0, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = -2 Query: 88 VMCAGAMIHSRIG 100 + CA + + SR+G Sbjct: 4086 ISCAASSVISRVG 4048 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 15/34 (44%) Frame = +2 Query: 14 HALTLAKRAWDEREVPVGAVLVHNNRVIGEGWNR 47 L L K + E + +L+ NNR W++ Sbjct: 749 QPLVLLKGSRIESTADISKLLLDNNRQNDTLWSQ 850 Score = 16.5 bits (31), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 76 IDATLYVTL 84 I T+YVTL Sbjct: 2506 IGTTMYVTL 2532 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TALA_ECOLI P0A867 Transaldolase A (2.2.1.2) (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -3 Query: 189 KPMDPYVVEEDPG 201 +P+DP VEE P Sbjct: 2660 EPLDPNRVEEAPA 2622 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -1 Query: 241 LTIAPNLLKEL 251 LTIAPN L + Sbjct: 4840 LTIAPNRLCRI 4808 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TALB_ECOLI P0A870 Transaldolase B (2.2.1.2) (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.36, Method: Compositional matrix adjust. Identities = 13/39 (33%), Positives = 18/39 (46%) Frame = +1 Query: 86 LKLVPGRISTEVDARLSYDTEASIAKAKRLIKLYNDAGI 124 +KL+ IST VD RLI+ + DAG+ Sbjct: 5398 IKLLAAEISTSVD---------------RLIQQFADAGL 5469 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 15/28 (53%) Frame = +1 Query: 251 ELAESEGAIERKLSYTGEVKARPARITE 278 ELA +E A + +V+ +PA+ E Sbjct: 5677 ELANTEKAKTEQAKQVEQVEKKPAKAEE 5760 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TAM_ECOLI P76145 Trans-aconitate 2-methyltransferase (2.1.1.144) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.54 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.54, Method: Composition-based stats. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 192 AIIDWVTATGLRPW 205 A+ID T GL PW Sbjct: 3491 AVIDINTQCGLAPW 3450 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = -3 Query: 215 QLFLKRYH 222 QLFL+RY+ Sbjct: 4358 QLFLRRYY 4335 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = -3 Query: 143 REVAWEQNYPDRGREPLAGVHAYYD 167 + V + QN+ EP+ VH+ +D Sbjct: 5165 QRVCYHQNFL-LFLEPMWSVHSGHD 5094 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TAS_ECOLI P0A9T4 Protein tas (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TATA_ECOLI P69428 Sec-independent protein translocase protein tatA (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.8, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 29 GSDLGAS 35 G+D+GAS Sbjct: 2596 GADMGAS 2616 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TATB_ECOLI P69425 Sec-independent protein translocase protein tatB (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -1 Query: 84 ELRQAAESMKRSY 96 ELR+ MKR Y Sbjct: 2641 ELRRHPLQMKRPY 2603 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TATC_ECOLI P69423 Sec-independent protein translocase protein tatC (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 13/22 (59%) Frame = +2 Query: 80 LILSAPVILYQVWAFIAPALYK 101 LI+ AP + VW + PAL K Sbjct: 1217 LIVRAPYAI--VWQRLPPALAK 1276 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TATD_ECOLI P27859 Deoxyribonuclease tatD (DNase tatD) (3.1.21.-) (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%), Gaps = 1/13 (7%) Frame = -3 Query: 144 DKLP-GAVLHCFT 155 D LP VLHC+T Sbjct: 3710 DTLPLTTVLHCYT 3672 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +3 Query: 130 DAHERFMTLLEPWLD 144 + + +TLLEP+ D Sbjct: 1563 NLESKIITLLEPY*D 1607 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TATE_ECOLI P0A843 Sec-independent protein translocase protein tatE (67 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TAUA_ECOLI Q47537 Taurine-binding periplasmic protein (Sulfate starvation-induced protein 1) (SSI1) (Precursor) (320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 15/36 (41%) Frame = +1 Query: 130 ISTTHYSLLAALKHWGIKPGQVEIVNLQPPAIIAAW 165 IST+ L+ G+K + V Q I+ A Sbjct: 5419 ISTSVDRLIQQFADAGLKKSETSSVTQQEKEILLAH 5526 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TAUB_ECOLI Q47538 Taurine import ATP-binding protein tauB (3.6.3.36) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TAUC_ECOLI Q47539 Taurine transport system permease protein tauC (275 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -1 Query: 69 QGFMDATLWQHLAAS 83 + + ATLW HL+ Sbjct: 5422 RSLLPATLWLHLSCC 5378 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 210 GWSTLVA 216 GWS+LVA Sbjct: 3077 GWSSLVA 3097 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TAUD_ECOLI P37610 Alpha-ketoglutarate-dependent taurine dioxygenase (1.14.11.17) (2-aminoethanesulfonate dioxygenase) (Sulfate starvation-induced protein 3) (SSI3) (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect(2) = 2.6, Method: Compositional matrix adjust. Identities = 5/19 (26%), Positives = 8/19 (42%) Frame = -1 Query: 244 DIAIWDNRVTQHYANADYL 262 + W N T H+ + L Sbjct: 4063 NFTCWHNHFTDHFPTTEGL 4007 Score = 16.2 bits (30), Expect(2) = 2.6, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -3 Query: 234 FQVRWR 239 FQ+RW+ Sbjct: 4136 FQIRWK 4119 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 102 VTFIETP 108 VTF++TP Sbjct: 6676 VTFLDTP 6696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDCA_ECOLI P0ACQ7 HTH-type transcriptional regulator tdcA (Tdc operon transcriptional activator) (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.066 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.066, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 19/33 (57%) Frame = +1 Query: 6 LPKTQHLVVFQEVIRSGSIGSAAKELGLTQPAV 38 L K ++ + VIR+ + GS K LG+T+ V Sbjct: 1843 LVKRLEMIPIECVIRNRTAGSLVKRLGITENQV 1941 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 245 VIPCDMTSPFGSN 257 +IPCD S F + Sbjct: 660 IIPCDALSLFSAG 622 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 94 EAVVEVSFGFPSL 106 +AVV +G+P L Sbjct: 1828 KAVVPFVWGYPQL 1790 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDCC_ECOLI P0AAD8 Threonine/serine transporter tdcC (H(+)/threonine-serine symporter) (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 403 LLPMYAIRKAP 413 LLP YA+ + P Sbjct: 5986 LLPFYALLQQP 5954 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDCD_ECOLI P11868 Propionate kinase (2.7.2.15) (402 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.30, Method: Compositional matrix adjust. Identities = 16/80 (20%), Positives = 31/80 (38%) Frame = +1 Query: 125 GIESAQQLFPGVTQVAVFDTSFHQTMAPEAYLYGLPWKYYEELGVRRYGFHGTSHRYVSQ 184 GI Q L + ++ + + H + EAY W H + +S Sbjct: 1921 GITENQVLNHPLFELFLKNDQLHDPIVSEAYCKAFGWASEA---------HLAQMKKLSY 2073 Query: 185 RAHSLLNLAEDDSGLVVAHL 204 + + +L+ DD+GL++ Sbjct: 2074 QVNDVLSKLFDDAGLILVDF 2133 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDCE_ECOLI P42632 Keto-acid formate acetyltransferase (2.3.1.-) (Keto-acid formate-lyase) (764 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.55, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = +2 Query: 627 GRRAGTPFAPGANPMHGRDRK 647 RRA P G+NP H + Sbjct: 3095 ARRAHNPKVAGSNPAHATTSR 3157 Score = 21.6 bits (44), Expect = 0.64, Method: Compositional matrix adjust. Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 9/60 (15%) Frame = +2 Query: 655 SVAKLPFTYAK-----DGISYTFSIVPA----ALGKEDPVRKTNLVGLLDGYFHHEADVE 705 ++AK+ T K I+ T+S + + ALG +DP K+ L G F + + V+ Sbjct: 1265 ALAKIGMTVTKRDRQQGNIAVTYSPINSRDWDALGAQDPKLKSGSYQLQVGDFGNRSSVQ 1444 Score = 20.8 bits (42), Expect = 0.92, Method: Compositional matrix adjust. Identities = 20/64 (31%), Positives = 27/64 (42%), Gaps = 2/64 (3%) Frame = -2 Query: 72 THAPVDFD--TNIATTITAHDAGYINQPLEKIVGLQTDAPLKRALHPFGGINMIKSSFHA 129 THAP+ + + T I A DAG +I L + + G +M KSS Sbjct: 4626 THAPIGSIRLSLVLTAILARDAG------SRIAALISINSSSIS-----GTSMRKSSISI 4480 Query: 130 YGRE 133 GRE Sbjct: 4479 SGRE 4468 Score = 19.6 bits (39), Expect(2) = 0.93, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 12/16 (75%) Frame = +3 Query: 248 DISRPAQNAQEAVQWL 263 +ISRP+ + +V+WL Sbjct: 3999 EISRPSVVGKWSVKWL 4046 Score = 17.3 bits (33), Expect(2) = 0.93, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 15/35 (42%) Frame = +2 Query: 284 TASFLDIYIERDFKAGVLNEQQAQELIDHFIMKIR 318 T S + YIE K+ V + Q + K+R Sbjct: 4124 TESEIPTYIEDQIKSVVFDRITTQTAKQVIVQKVR 4228 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDCF_ECOLI P0AGL2 Protein tdcF (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.5, Method: Compositional matrix adjust. Identities = 9/35 (25%), Positives = 19/35 (54%), Gaps = 6/35 (17%) Frame = +2 Query: 34 PVCPQTGEIPADVQDQA------RLSLENVKAIVV 62 P+ ++ EIP ++DQ R++ + K ++V Sbjct: 4115 PISTES-EIPTYIEDQIKSVVFDRITTQTAKQVIV 4216 Score = 15.0 bits (27), Expect = 7.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 98 HQATYP 103 H+A YP Sbjct: 4382 HEAAYP 4365 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDCG_ECOLI P42630 L-serine dehydratase tdcG (SDH) (4.3.1.17) (L-serine deaminase) (454 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.3, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 14/35 (40%) Frame = +3 Query: 325 LYKMNASISGAEVGCQGEIGVACSMAAAGLTELLG 359 L K G E+G + CS+ G +LG Sbjct: 2904 LKKCYLQYRGGEIGRHATLRW*CSIGLTGSNPVLG 3008 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDCR_ECOLI P11866 Threonine dehydratase operon activator protein (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.78, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 10 NKPFSVIN 17 NKP +V+N Sbjct: 6250 NKPVAVVN 6273 Score = 16.2 bits (30), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -3 Query: 59 SSDRTSFCECNRFP 72 ++ SFC+ +FP Sbjct: 5090 AALEASFCQNYQFP 5049 Score = 14.6 bits (26), Expect = 4.0, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -3 Query: 21 CHIFSRY 27 C++ SRY Sbjct: 1085 CNVVSRY 1065 Score = 14.2 bits (25), Expect = 6.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 4/6 (66%) Frame = -1 Query: 67 ECNRFP 72 CN FP Sbjct: 4291 SCNNFP 4274 Score = 13.9 bits (24), Expect = 7.3, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +3 Query: 54 NVNFFSSDRTSFCEC 68 ++NF S T+ C C Sbjct: 5418 DLNFS*SPHTAVC*C 5462 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TDH_ECOLI P07913 L-threonine 3-dehydrogenase (1.1.1.103) (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TEHA_ECOLI P25396 Tellurite resistance protein tehA (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.8, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = -1 Query: 109 FSFGVVVQLAYAAWQTAGLWRGS 131 +SFGV+ + Y A T + GS Sbjct: 4354 YSFGVIT*V*YNALST-DFFNGS 4289 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TEHB_ECOLI P25397 Tellurite resistance protein tehB (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = +3 Query: 124 TKPGGYNLIVAAMDTADY 141 + PG L+ A D DY Sbjct: 3591 SSPGLERLLFTAEDYTDY 3644 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TESA_ECOLI P0ADA1 Acyl-CoA thioesterase I (3.1.2.-) (Protease I) (Lysophospholipase L1) (3.1.1.5) (Lecithinase B) (Precursor) (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TESB_ECOLI P0AGG2 Acyl-CoA thioesterase 2 (3.1.2.-) (Acyl-CoA thioesterase II) (TEII) (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.37, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = +2 Query: 65 LRPGDSKKPIIYDV 78 +RPGD + I+Y++ Sbjct: 4388 IRPGDRIRGILYEI 4429 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 61 HSYFLRP 67 +SY+LRP Sbjct: 2740 YSYYLRP 2720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TESC_ECOLI P77712 Long-chain acyl-CoA thioesterase tesC (3.1.2.-) (Acyl-CoA thioester hydrolase ybaW) (Thioesterase 3) (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.054 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.054, Method: Compositional matrix adjust. Identities = 13/37 (35%), Positives = 19/37 (51%) Frame = +1 Query: 4 QIKVRGYHLDVYQHVNNARYLEFLEEARWDGLENSDS 40 QI++ YH+ QH AR E +A+ +G S S Sbjct: 6022 QIELTDYHVTTSQH---ARAAEDENDAKVEGDRRSRS 6123 Score = 17.3 bits (33), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +2 Query: 6 KVRGYHLDVYQHV 18 KVR Y+LD +++ Sbjct: 455 KVRVYYLDC*ENI 493 Score = 15.4 bits (28), Expect = 5.3, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +1 Query: 105 TFVCIDLKTQKALAL 119 T++CI + LAL Sbjct: 2854 TYLCIGAQRNFKLAL 2898 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TFAD_ECOLI P77699 Putative tail fiber assembly protein homolog from lambdoid prophage DLP12 (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 122 EDHRGKT 128 + HRGKT Sbjct: 2200 DSHRGKT 2180 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TFAE_ECOLI P09153 Tail fiber assembly protein homolog from lambdoid prophage e14 (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TFAQ_ECOLI P76155 Tail fiber assembly protein homolog from lambdoid prophage Qin (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 25 IGEGDAYIPPHTG 37 IG+G+A + H G Sbjct: 892 IGDGEALVLHHCG 854 Score = 16.5 bits (31), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 69 EDHRGKT 75 + HRGKT Sbjct: 2200 DSHRGKT 2180 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TFAR_ECOLI P77163 Tail fiber assembly protein homolog from lambdoid prophage Rac (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 25 IGEGDAYIPPHTG 37 IG+G+A + H G Sbjct: 892 IGDGEALVLHHCG 854 Score = 16.5 bits (31), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 69 EDHRGKT 75 + HRGKT Sbjct: 2200 DSHRGKT 2180 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TFAS_ECOLI P77326 Putative tail fiber assembly protein homolog from prophage CPS-53 (114 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TGT_ECOLI P0A847 Queuine tRNA-ribosyltransferase (2.4.2.29) (tRNA-guanine transglycosylase) (Guanine insertion enzyme) (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 13/24 (54%) Frame = +1 Query: 165 WAKRSRERFDSLGNKNALFGIIQG 188 W K++ E+ D + L G+I+ Sbjct: 2206 WDKKTLEKMDKDRFRGNLGGVIEA 2277 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 6/35 (17%), Positives = 14/35 (40%) Frame = -2 Query: 18 VFDRGVVETPCFMPVGTYGTVKGMTPEEVEATGAQ 52 + ++ P F + + K +TP ++ Q Sbjct: 5334 ILRAAIINLPAFSSSSSSISAKSLTPCSARSSSVQ 5230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THD1_ECOLI P04968 Threonine dehydratase biosynthetic (4.3.1.19) (Threonine deaminase) (514 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.19, Method: Compositional matrix adjust. Identities = 13/38 (34%), Positives = 20/38 (52%) Frame = -3 Query: 226 AGHPVDLPRVGLFAEGVAVKRIGDETFRLCQEYLDDII 263 +G+P+ +PRV L AE + V CQ +L I+ Sbjct: 779 SGNPLIVPRVELVAECLTV----------CQRHLAVIL 696 Score = 21.9 bits (45), Expect = 0.29, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 17/32 (53%) Frame = +2 Query: 309 RLAHILSGANVNFHGLRYVSERCELGEQREAL 340 RL LSG +N + + E+C+ E R A+ Sbjct: 4847 RLVSQLSGWELNVMTINELKEKCQ-AETRTAI 4939 Score = 17.7 bits (34), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 11/13 (84%) Frame = +2 Query: 202 QLMPQIKVIAVEA 214 ++MP++K IAV A Sbjct: 6083 KMMPRLKEIAVVA 6121 Score = 17.3 bits (33), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = +3 Query: 235 VGLFAEGVAVKRIGDETFR 253 +G AEG +RIG + Sbjct: 3225 IGSHAEGFFQRRIGSSCIK 3281 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THD2_ECOLI P0AGF6 Threonine dehydratase catabolic (4.3.1.19) (Threonine deaminase) (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 14/29 (48%) Frame = -1 Query: 35 YFSERCKGEIFLKFENMQRTGSFKIRGAF 63 +F RC+ F F+N+ F IR F Sbjct: 3952 FFLGRCR*CNF*CFKNLLTWKGFLIRNGF 3866 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THGA_ECOLI P07464 Galactoside O-acetyltransferase (GAT) (2.3.1.18) (Thiogalactoside acetyltransferase) (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = -2 Query: 117 VHHELRKNGEMYSFPI 132 VH+E+ K +SFPI Sbjct: 1782 VHNEMIKLIIDHSFPI 1735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIB_ECOLI P31550 Thiamine-binding periplasmic protein (Precursor) (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIC_ECOLI P30136 Thiamine biosynthesis protein thiC (631 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.4, Method: Compositional matrix adjust. Identities = 14/60 (23%), Positives = 21/60 (35%) Frame = +3 Query: 319 LLEQAEQGVDYFTIHAGVLLRYVPMTAKRLTGIVSRGGSIMAKWCLSHHQENFLYQHFRE 378 LL AE DY + LR ++ GI+ M + E F + R+ Sbjct: 3612 LLFTAEDYTDYLGERINLTLRIAMQNRRKWQGIIKAVDGEMIIVTVDGKDEVFALSNIRK 3791 Score = 18.1 bits (35), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 74 YDTSGPY 80 +DT+GPY Sbjct: 3281 FDTTGPY 3261 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THID_ECOLI P76422 Phosphomethylpyrimidine kinase (2.7.4.7) (HMP-phosphate kinase) (HMP-P kinase) (HMPP kinase) (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 3/64 (4%) Frame = +2 Query: 108 MLAKSGDPL--LSPSAV-ATLRSRLLPQVSLITPNLPEAAALLDAPHARTEQEMLEQGRS 164 ML + PL LS + TL +L Q L T + ++ + PH T Q EQG Sbjct: 6812 MLKQRKSPLSLLSTK*INQTLIQSVLEQNYLSTVSCQKSGE--EIPHLFTYQLKREQGLM 6985 Query: 165 LLAM 168 + +M Sbjct: 6986 IYSM 6997 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 14/32 (43%) Frame = -3 Query: 34 GCSVITALVAQNTRGVQSVYRIEPDFVAAQLD 65 GC V A +A + S+Y + F LD Sbjct: 3806 GCPVCFADIA*CEHFIFSIYSNDDHFSIDSLD 3711 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 12/23 (52%) Frame = +3 Query: 167 AMGCGAVLMKGGHLDDEQSPDWL 189 + C + ++KG H + + WL Sbjct: 1431 VVACNSPILKGIH*INNKMMRWL 1499 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -2 Query: 197 RFTAPRIMTKNTHGTGC 213 +FT +TK H T C Sbjct: 273 KFTFSYPLTKLRHSTCC 223 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 12/18 (66%) Frame = +1 Query: 122 VATLRSRLLPQVSLITPN 139 VA + SRL + +L TP+ Sbjct: 541 VADVVSRLFDRTTL*TPS 594 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 251 EVGHGIGPVHHFH 263 + G + P HHFH Sbjct: 6118 DYGDLLQPWHHFH 6080 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 7/19 (36%) Frame = +2 Query: 221 ALRPRHTNWADTVQEAKSW 239 LR W D Q K W Sbjct: 1790 KLRVSPHKWNDCFQTTKHW 1846 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIE_ECOLI P30137 Thiamine-phosphate pyrophosphorylase (TMP pyrophosphorylase) (TMP-PPase) (2.5.1.3) (Thiamine-phosphate synthase) (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 5/66 (7%) Frame = +3 Query: 99 RAAGLRLGVSTHDDMEIDVALAARPSYIALGHVFPTQTKQMP-----SAPQGLEQLARHV 153 R + LR+ + D + +D + A SY + + P S+P GLE+L Sbjct: 3456 RQSTLRIYIDNCDGVTVD--MCADVSYQVSAVLDVEEPITCPYNLEVSSP-GLERLLFTA 3626 Query: 154 ERLADY 159 E DY Sbjct: 3627 EDYTDY 3644 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +2 Query: 181 GSIAVVSAITQAADWRLATAQ 201 G+IAV + + DW AQ Sbjct: 1313 GNIAVTYSPINSRDWDALGAQ 1375 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIF_ECOLI P30138 Adenylyltransferase thiF (2.7.7.-) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.60, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 10/19 (52%) Frame = +2 Query: 229 WRSLALRRASGCPVCGGSN 247 W SL RRA P GSN Sbjct: 3080 WSSLVARRAHN-PKVAGSN 3133 Score = 19.2 bits (38), Expect = 0.96, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = +1 Query: 125 CTDNMATRQEINAACVALN 143 CT + R +AACV+ N Sbjct: 1222 CTSTLRHRLATSAACVSKN 1278 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +2 Query: 133 QEINAACVALNTPLITASAV 152 QEI+ NTP+ T S + Sbjct: 4079 QEISKEEAQQNTPISTESEI 4138 Score = 16.2 bits (30), Expect = 7.3, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -3 Query: 239 GCPVC 243 GCPVC Sbjct: 3806 GCPVC 3792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIG_ECOLI P30139 Thiazole biosynthesis protein thiG (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +2 Query: 58 LIAAGVTLLPNTSGA 72 ++AAG LPN A Sbjct: 6113 VVAAGEVKLPNRKKA 6157 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIH_ECOLI P30140 Thiazole biosynthesis protein thiH (377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 12/23 (52%) Frame = -3 Query: 89 CTYCGFSMSNRIKRKTLDEADIA 111 C YCGF +S + T + ++ Sbjct: 1142 CYYCGFYLSLQSIYST*HDCNVV 1074 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 10/10 (100%) Frame = -1 Query: 75 FYVPLYLSNL 84 +YVPL+L++L Sbjct: 2470 YYVPLFLASL 2441 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THII_ECOLI P77718 Thiamine biosynthesis protein thiI (482 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.066 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.066, Method: Compositional matrix adjust. Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 6/85 (7%) Frame = +2 Query: 80 EDVPFTDMHDIFEKALVQYRDQLEGKTFCVRVKRRGKHDFSSIDVERYVGGGLNQHIE-- 137 EDVPF + I ++ Q +QL + ++++ K S+I+++ Y LN+ IE Sbjct: 950 EDVPFAGRYQI---SVQQQGNQLALVVKSLGLQQQEKMVTSNIEIQHYNRAMLNKLIEGL 1120 Query: 138 ----SARVKLTNPDVTVHLEVEDDR 158 S N D LEV+ R Sbjct: 1121 DKIRSNSNNAQNTDKIGRLEVQAAR 1195 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 45 RHWDNIEVRAKDE 57 W+N+ AKDE Sbjct: 2761 SEWENLSQPAKDE 2799 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = +1 Query: 129 GGGLNQHIESARVKLTNPDVT 149 GG+ QHI + V+ N VT Sbjct: 6619 AGGITQHIGAYHVETENGMVT 6681 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 13/21 (61%) Frame = +2 Query: 461 MSRLQALYLREQGFNNVKVYR 481 +SRL+ L+++ VKV R Sbjct: 5723 LSRLRKSQLKQKSRQKVKVQR 5785 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIJ_ECOLI Q46948 Protein thiJ (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -2 Query: 32 VTTASVASDGNLAITC 47 +TTA AS ITC Sbjct: 4251 ITTARSASRTFCTITC 4204 Score = 16.2 bits (30), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -1 Query: 130 LKDKIPAEQWLD 141 L+ +PA WL Sbjct: 5425 LRSLLPATLWLH 5390 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIK_ECOLI P75948 Thiamine kinase (2.7.1.89) (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 12/55 (21%), Positives = 23/55 (41%) Frame = +2 Query: 169 DVHAGNLVHSASGLKLIDWEYAGDGDIALELAAVWVENTEQHRQLVNDYATRAKI 223 D GN+ + S + DW+ G D L+ + ++ V D+ R+ + Sbjct: 1301 DRQQGNIAVTYSPINSRDWDALGAQDPKLKSGSYQLQ--------VGDFGNRSSV 1441 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +1 Query: 243 KAGWFEYR 250 K G+FEYR Sbjct: 1048 KNGYFEYR 1071 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 70 QLPACIAPKP 79 +LP+C P+P Sbjct: 3098 ELPSCSIPRP 3069 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -1 Query: 77 PKPHLYL 83 P PHLYL Sbjct: 2608 PYPHLYL 2588 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIL_ECOLI P0AGG0 Thiamine-monophosphate kinase (Thiamine-phosphate kinase) (2.7.4.16) (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.3, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 10/20 (50%) Frame = -2 Query: 137 FVPMGRALTRSGAKPGDWIY 156 F+P A+ GD+I+ Sbjct: 2214 FIPQATAIGGKLITQGDFIF 2155 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIM_ECOLI P76423 Hydroxyethylthiazole kinase (2.7.1.50) (4-methyl-5-beta-hydroxyethylthiazole kinase) (Thz kinase) (TH kinase) (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIO2_ECOLI P0AGG4 Thioredoxin-2 (Trx-2) (1.8.1.8) (Protein-disulfide reductase) (139 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.37, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -2 Query: 62 PWCGPCRNFA 71 P C PCRNF Sbjct: 6627 PSCFPCRNFG 6598 Score = 15.4 bits (28), Expect = 6.3, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = -2 Query: 1 MNTVCTHC 8 +NT+ HC Sbjct: 1728 LNTLTIHC 1705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIO_ECOLI P0AA25 Thioredoxin-1 (Trx-1) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -2 Query: 8 LTDDSFDTDVL 18 +TDD+FD D L Sbjct: 1890 ITDDTFDRDHL 1858 Score = 16.5 bits (31), Expect = 2.1, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -2 Query: 29 WAEWCGPCKMIAPIL 43 +A W G + I P+L Sbjct: 3474 YAVWIGALE*IRPLL 3430 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIP_ECOLI P31549 Thiamine transport system permease protein thiP (536 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 470 CVLSIGD 476 C+L+IGD Sbjct: 904 CILTIGD 884 Score = 16.9 bits (32), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 133 TFSPYGL 139 T+SPYG+ Sbjct: 2511 TYSPYGV 2491 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIQ_ECOLI P31548 Thiamine import ATP-binding protein thiQ (3.6.3.-) (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -2 Query: 7 ITWLYHHLPMRFS 19 IT L+H MRF+ Sbjct: 2073 ITQLFHLRQMRFT 2035 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THIS_ECOLI O32583 Protein thiS (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THRC_ECOLI P00934 Threonine synthase (4.2.3.1) (428 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= THTM_ECOLI P31142 3-mercaptopyruvate sulfurtransferase (MST) (2.8.1.2) (Rhodanese-like protein) (281 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 1/42 (2%) Frame = +3 Query: 71 RPETFAVA-MRELGVNQDKHLIVYDEGNLFSAPRAWWMLRTF 111 + E FA++ +R+ N+ H + GNL R W + + F Sbjct: 3756 KDEVFALSNIRK--ANRAPHF*KFRRGNLG*TKRFWLL*KPF 3875 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TIG_ECOLI P0A850 Trigger factor (TF) (432 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.72, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +3 Query: 267 RAEVRKNMERELKSAI 282 R RKNM ++LKS + Sbjct: 3933 RQRPRKNMNKKLKSGL 3980 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TILS_ECOLI P52097 tRNA(Ile)-lysidine synthase (6.3.4.-) (tRNA(Ile)-lysidine synthetase) (tRNA(Ile)-2-lysyl-cytidine synthase) (432 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 11/23 (47%) Frame = +2 Query: 261 WLAGQNAPMPSRDALVRIWQEVA 283 W MP+R+ + QE++ Sbjct: 4022 WKVVSEVVMPTREITLEAAQEIS 4090 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TISB_ECOLI A5A627 LexA-regulated protein tisB (29 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TKT1_ECOLI P27302 Transketolase 1 (TK 1) (2.2.1.1) (663 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TKT2_ECOLI P33570 Transketolase 2 (TK 2) (2.2.1.1) (667 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TLDD_ECOLI P0AGG8 Protein tldD (481 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 43 SYHESWVL 50 +YH+ WVL Sbjct: 136 NYHQRWVL 113 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TNAA_ECOLI P0A853 Tryptophanase (4.1.99.1) (L-tryptophan indole-lyase) (TNase) (471 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.93, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 15/29 (51%) Frame = -3 Query: 4 FKHLPEPFRIRVIEPVKRTTRAYREEAII 32 F HL +R+ PV++ AYR ++ Sbjct: 5300 FHHLALQYRLNR*HPVRQDLPAYRPRTLL 5214 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -1 Query: 75 SGSRSYYALAESVKN 89 + RSY + SVKN Sbjct: 4765 NNDRSYLSWRHSVKN 4721 Score = 16.9 bits (32), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 228 SARFAENAYFI 238 +ARF AYF+ Sbjct: 2829 AARFWRRAYFL 2797 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TNAB_ECOLI P23173 Low affinity tryptophan permease (415 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.38, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 11/15 (73%) Frame = -1 Query: 202 CLASFGFHGNIPSLI 216 CLA F F+G P+L+ Sbjct: 6232 CLAFFCFYGQQPALL 6188 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +2 Query: 401 LCWFGN 406 +CWFG+ Sbjct: 5333 ICWFGD 5350 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 13/26 (50%) Frame = -3 Query: 218 CYGKRKDKLIKSVVFGSLLALVIYLF 243 CY KR K V S ++ I+LF Sbjct: 2417 CYLKRSGY*RKPAVCASAISP*IFLF 2340 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TNPA_ECOLI Q00037 Transposase for transposon gamma-delta (Transposon Tn1000 transposase) (1002 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.38, Method: Compositional matrix adjust. Identities = 22/91 (24%), Positives = 43/91 (47%), Gaps = 2/91 (2%) Frame = +1 Query: 348 VPDLRQVIFKCVPKNRLAESVSKVNELARPQNNNFHDEMVEQYGRVKRFLPAVLRDLHFR 407 V L + +CV +NR A S+ V L +N + + E + + + ++ + + + Sbjct: 1846 VKRLEMIPIECVIRNRTAGSL--VKRLGITENQVLNHPLFELFLKNDQLHDPIVSEAYCK 2019 Query: 408 AAP-AGEHVLAAIHYLA-ELNGSKKRILDDA 436 A A E LA + L+ ++N ++ DDA Sbjct: 2020 AFGWASEAHLAQMKKLSYQVNDVLSKLFDDA 2112 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TNPX_ECOLI Q00042 Putative transposon gamma-delta 80.3 kDa protein (Transposon Tn1000 protein tnpX) (698 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TNR1_ECOLI P03012 Transposon gamma-delta resolvase (Transposon Tn1000 resolvase) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.28, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 14/30 (46%) Frame = -2 Query: 154 MWQQGLGASHISKTMNIARSTVYKVINESN 183 WQ + SKT+ I+ +Y V N N Sbjct: 6924 FWQDTVLR*FCSKTLWISVWFIYFVDNNDN 6835 Score = 16.9 bits (32), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 165 SKTMNIA 171 +KTMNIA Sbjct: 4775 AKTMNIA 4795 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TOLA_ECOLI P19934 Protein tolA (421 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TOLB_ECOLI P0A855 Protein tolB (Precursor) (430 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = -3 Query: 231 LANGAVRQVASFPRHNGA 248 L + V V +FPR+N A Sbjct: 1670 LGSSVV*TVLAFPRYNSA 1617 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TOLC_ECOLI P02930 Outer membrane protein tolC (Precursor) (493 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 17/33 (51%) Frame = +1 Query: 439 NALSKPVSTNPENVAPQTPEQNAIADGYAPDSP 471 N + KP + +PE + + + + + + DSP Sbjct: 6850 NKIDKP-NADPERLRTELSQHGILPEEWGGDSP 6945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TOLQ_ECOLI P0ABU9 Protein tolQ (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.38, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 10/18 (55%) Frame = +1 Query: 208 NFMEEFTAILHRQAFTVS 225 NFM TAIL F VS Sbjct: 2665 NFMTRMTAILATLFFIVS 2718 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TOLR_ECOLI P0ABV6 Protein tolR (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 14/25 (56%) Frame = +2 Query: 65 IVEVSGIGQYTVVVEKDRLERLPPE 89 ++ +S + V + LER+PP+ Sbjct: 2564 LLRLSYCNKVKVRIWALHLERVPPQ 2638 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TONB_ECOLI P02929 Protein tonB (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TOP1_ECOLI P06612 DNA topoisomerase 1 (5.99.1.2) (DNA topoisomerase I) (Omega-protein) (Relaxing enzyme) (Untwisting enzyme) (Swivelase) (865 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TOP3_ECOLI P14294 DNA topoisomerase 3 (5.99.1.2) (DNA topoisomerase III) (653 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORA_ECOLI P33225 Trimethylamine-N-oxide reductase 1 (TMAO reductase 1) (Trimethylamine oxidase 1) (1.7.2.3) (Precursor) (848 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/33 (18%), Positives = 17/33 (51%) Frame = -3 Query: 643 PLGTPSGLIEIYSKTIADMNYDDCQGHPMWFEK 675 P+G+P + +I+ + +DC+ + ++ Sbjct: 2501 PMGSPHKKCSLLCASISSIAKEDCKQPQCYLKR 2403 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORC_ECOLI P33226 Cytochrome c-type protein torC (390 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.61, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 16/27 (59%) Frame = +2 Query: 180 QLPDMSSGFRKQFDELRASANDSGDTL 206 +LP++ S +K+ ELR A + TL Sbjct: 5042 ELPEIDSFDKKRLQELRDRAQNVLTTL 5122 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 8/21 (38%) Frame = -1 Query: 66 HFQNASGVRAECHDCHIPPDI 86 HF G+ C I PD Sbjct: 4030 HFPTTEGLEISCFSIDINPDF 3968 Score = 16.9 bits (32), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 319 AYADSLYNGTCNQ 331 A + +NG+CN Sbjct: 4318 ALSTDFFNGSCNN 4280 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORD_ECOLI P36662 Chaperone protein torD (199 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 8/9 (88%) Frame = -2 Query: 12 VYAWLAQLF 20 +++WL Q+F Sbjct: 2796 IFSWLTQIF 2770 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORI_ECOLI Q2EES9 Response regulator inhibitor for tor operon (Tor inhibitor) (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.16, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 13/28 (46%) Frame = -1 Query: 34 GDLPKAKVIHGRARWLYRDHCEFKNKLL 61 GD K + + WL+ C F +LL Sbjct: 5440 GDQLKLRSLLPATLWLHLSCCSFLLQLL 5357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORR_ECOLI P38684 TorCAD operon transcriptional regulatory protein torR (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.28, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 4/32 (12%) Frame = -3 Query: 135 YRFAGYCLNV----SRHTLERDGEPIKLTRAE 162 YRF YCL + + TL G P+ + R E Sbjct: 836 YRFDDYCLTIIY*YQQWTL--SGNPLIVPRVE 747 Score = 19.2 bits (38), Expect = 0.87, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 13/18 (72%) Frame = +3 Query: 144 VSRHTLERDGEPIKLTRA 161 +SR +RDG+ ++ TRA Sbjct: 6648 LSR*NRKRDGDLLRYTRA 6701 Score = 18.9 bits (37), Expect = 0.92, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = +2 Query: 121 DLARQAQPHTQDNCYR 136 DL + PH ++C++ Sbjct: 1784 DLKLRVSPHKWNDCFQ 1831 Score = 17.3 bits (33), Expect(2) = 2.2, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 186 LSARRVENPDL 196 L ARR NP + Sbjct: 3089 LVARRAHNPKV 3121 Score = 16.5 bits (31), Expect(2) = 2.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = +3 Query: 215 LVTQHGEGYF 224 + H EG+F Sbjct: 3222 FIGSHAEGFF 3251 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORS_ECOLI P39453 Sensor protein torS (2.7.13.3) (914 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.70, Method: Compositional matrix adjust. Identities = 9/14 (64%), Positives = 11/14 (78%) Frame = +1 Query: 615 PFVQVSGKRGGTGL 628 PFV VS K+ GTG+ Sbjct: 6943 PFVHVSAKK-GTGI 6981 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 20/32 (62%) Frame = -3 Query: 883 QQPLSAPLPHEEITRSVAALEAWLHKKDLNAI 914 + P+SAPLP +++ +E + KK+ +++ Sbjct: 2615 EAPISAPLPCCNTISAISPIE--ISKKNTSSV 2526 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORT_ECOLI P38683 Periplasmic protein torT (Precursor) (342 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.14, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 3/28 (10%) Frame = -1 Query: 100 QWGAEA---ILLGSSTTSFPDLQKQVAS 124 +WGA ILL ++T+SFP + S Sbjct: 3811 KWGARFALRILLSANTSSFPSTVTMIIS 3728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORY_ECOLI P52005 Cytochrome c-type protein torY (366 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 12/14 (85%) Frame = +2 Query: 228 QPIVLLQGYQMQGS 241 QP+VLL+G +++ + Sbjct: 749 QPLVLLKGSRIEST 790 Score = 16.5 bits (31), Expect = 9.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +2 Query: 41 SCHSMSKP 48 SCH S+P Sbjct: 6782 SCHRRSRP 6805 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TORZ_ECOLI P46923 Trimethylamine-N-oxide reductase 2 (TMAO reductase 2) (Trimethylamine oxidase 2) (1.7.2.3) (Precursor) (809 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 744 VCVHEGAWPDLENGL 758 VC HE A+P ++ L Sbjct: 4391 VCFHEAAYPPVQLFL 4347 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 1/38 (2%) Frame = +1 Query: 548 LAELLKPGGKEIYTEGKDEMAWLKFFYD-AAQKGARAQ 584 LAEL + K +YT L+F D +A G R Q Sbjct: 1615 LAELYRGKAKTVYTTEDPNYLVLEFRNDTSAMDGQRIQ 1728 Score = 18.9 bits (37), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +1 Query: 319 KSAVWAAEITG 329 KSA ++ EITG Sbjct: 1000 KSACFSGEITG 1032 Score = 18.5 bits (36), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 13/16 (81%) Frame = +3 Query: 596 QQNKLIEMRHSEKNEQ 611 Q+NKL+ ++++ NEQ Sbjct: 4197 QRNKLLYKKYAKLNEQ 4244 Score = 17.7 bits (34), Expect = 9.3, Method: Compositional matrix adjust. Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 1/52 (1%) Frame = +2 Query: 650 PAHP-TWLAPDEWKGTADEKQLQLLTAHPAHRLHSQLNYAELRKKYAIADRE 700 P P L + TAD +L L L SQ+ + IADR+ Sbjct: 743 PIQPLVLLKGSRIESTADISKLLLDNNRQNDTLWSQITTVMQNESLPIADRQ 898 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TPIS_ECOLI P0A858 Triosephosphate isomerase (TIM) (5.3.1.1) (Triose-phosphate isomerase) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.71, Method: Compositional matrix adjust. Identities = 5/23 (21%), Positives = 12/23 (52%) Frame = -3 Query: 154 QGAAAFEGAVIAYEPVWAIGTGK 176 Q + ++ EP+W++ +G Sbjct: 5165 QRVCYHQNFLLFLEPMWSVHSGH 5097 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 15/37 (40%) Frame = -3 Query: 87 GAQYIIIGHSERRTYHKESDELIAKKFAVLKEQGLTP 123 YI++ + HK+ L A ++ KE P Sbjct: 2531 SVTYIVVPILPMGSPHKKCSLLCASISSIAKEDCKQP 2421 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TPPB_ECOLI P77304 Tripeptide permease tppB (500 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 19/96 (19%), Positives = 41/96 (42%) Frame = +1 Query: 366 ILPLGAKFASDAGIVSVSWLVASYGLQSIGELMISGLGLAMVAQLVPQRLMGFIMGSWFL 425 ++PL + +A ++V W GL + L + L +V Q +R+ + + L Sbjct: 301 LMPLHKELFIEANPIAVKWACKRLGLITAETLRLPMTSLTLVNQ---KRVEDALKSAGLL 471 Query: 426 TTAGANLIGGYVAGMMAVPDNVTDPLMSLEVYGRVF 461 + L+G Y + + ++ + +V R+F Sbjct: 472 ----S*LLGKYNGYITKISNDKDNKRFVADVVSRLF 567 Score = 16.9 bits (32), Expect = 9.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -2 Query: 5 NQKPTESVSLNAFKQPKA 22 N P ESV+ + PK+ Sbjct: 1470 NVCPLESVNCTLLRLPKS 1417 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TPX_ECOLI P0A862 Thiol peroxidase (1.11.1.-) (Scavengase P20) (168 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TQSA_ECOLI P0AFS5 AI-2 transport protein tqsA (Transport of quorum-sensing signal protein) (344 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 13/25 (52%) Frame = +1 Query: 306 LGPVGMLLSVPLTIIVKIALEQTAG 330 L P +S I +IAL QTAG Sbjct: 2311 LAPFSDNVSANKKI*GEIALAQTAG 2385 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAB1_ECOLI P41067 Protein traB (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -3 Query: 157 SFPPQGSVA 165 + PPQGSV+ Sbjct: 2972 ALPPQGSVS 2946 Score = 17.7 bits (34), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +2 Query: 237 NESTVPMQLRITGLV 251 N + P+QL ++GLV Sbjct: 320 NYLSKPIQLPLSGLV 364 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAC_ECOLI P18004 Protein traC (875 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.30, Method: Composition-based stats. Identities = 11/16 (68%), Positives = 11/16 (68%), Gaps = 3/16 (18%) Frame = -1 Query: 395 GFELISPRF---NHMR 407 GFELISP F NH R Sbjct: 58 GFELISPPFRAINHNR 11 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 14/39 (35%), Positives = 21/39 (53%) Frame = +1 Query: 25 SAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMG 63 S + N+VL ++ F +L D+ E GLF N T+G Sbjct: 2068 SYQVNDVLSKL-FDDAGLILV--DFKLEFGLFENKITLG 2175 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAD1_ECOLI P09130 Protein traD (717 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.81 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.81, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 4/21 (19%) Frame = +1 Query: 127 FFVVSWILG----RQGKQQSE 143 FF+VS +LG +Q +Q SE Sbjct: 2704 FFIVSLVLGNMSSKQHRQSSE 2766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAE1_ECOLI P08322 Protein traE (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.94 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.94, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 14/29 (48%) Frame = -3 Query: 48 AVTPMAFNAPFAVSQNSADASYLQQMALS 76 AVT + PF + +S L ++ LS Sbjct: 215 AVTEIIPCPPFCIKSKPVASSPLSRIKLS 129 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAF_ECOLI P14497 Protein traF (Precursor) (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAG1_ECOLI P33790 Protein traG (Protein traG*) (938 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 12/20 (60%) Frame = +2 Query: 209 TCKDASVTLKDRLNLDTKTG 228 T K ++ R+N+D KTG Sbjct: 3941 TKKKHEQEIEVRVNIDRKTG 4000 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAH1_ECOLI P15069 Protein traH (Precursor) (458 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 80 DINAGCGGI 88 D+NA C G+ Sbjct: 6716 DVNAACPGV 6690 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAI1_ECOLI P14565 Protein traI (DNA helicase I) (3.6.1.-) (1756 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAJ1_ECOLI P06626 Protein traJ (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAK1_ECOLI P41066 TraK lipoprotein (Precursor) (242 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -2 Query: 87 KPFTFILETE 96 +PFTFI Sbjct: 6006 RPFTFIFCCH 5977 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAL1_ECOLI P08321 Protein traL (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAM1_ECOLI P10026 Protein traM (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +2 Query: 71 LECVVKTQS 79 L CVVK S Sbjct: 6446 LSCVVKMNS 6472 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAN_ECOLI P24082 Protein traN (Precursor) (602 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.27, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 14/28 (50%) Frame = +1 Query: 523 LAQIVQQQGRNGQLRISFGSAKHPDCRG 550 +A IV QQG+ + SFG+ G Sbjct: 2566 IALIVLQQGKGADMGASFGAGASSTLFG 2649 Score = 19.6 bits (39), Expect = 1.9, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 15/33 (45%) Frame = +3 Query: 522 KLAQIVQQQGRNGQLRISFGSAKHPDCRGITVD 554 KL + GR LRI +C G+TVD Sbjct: 3426 KLVGVEFIPGRQSTLRIYID-----NCDGVTVD 3509 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAP_ECOLI P41068 Protein traP (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAQ_ECOLI P18033 Protein traQ (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAR_ECOLI P41065 Protein traR (73 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAS1_ECOLI P09129 Protein traS (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 7/30 (23%) Frame = -1 Query: 69 WLGLIILFIVA-------RIRMLYFSLPEE 91 WL IIL++VA +R +Y LP + Sbjct: 337 WLR*IILYVVALNAHLNGLLR*IYLQLPVD 248 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAT1_ECOLI P13979 TraT complement resistance protein (Precursor) (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 15/32 (46%) Frame = +2 Query: 82 YQVVTSPDKAYYWIQANVLKADKMDLRESQGW 113 YQ + + A +W+ NVL A D GW Sbjct: 3008 YQFI---EIACFWMMINVLFATFSD----AGW 3082 Score = 15.8 bits (29), Expect = 9.5, Method: Compositional matrix adjust. Identities = 10/41 (24%), Positives = 19/41 (46%) Frame = +2 Query: 5 KKLMMVALVSSTLALSGCGAMSTAIKKRNLEVKTQMSETIW 45 K+L + + + L G STA + L + ++T+W Sbjct: 722 KQLDIRPPIQPLVLLKGSRIESTADISKLLLDNNRQNDTLW 844 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAU_ECOLI P18471 Protein traU (Precursor) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.69, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -3 Query: 37 ICWSCIFPLSLGSIKV 52 IC +FP LG+ KV Sbjct: 5633 ICTDLLFPPELGTFKV 5586 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +3 Query: 281 RYQMVNMYPDSGQCHP 296 R+ + +YPD HP Sbjct: 1188 RHVTIALYPDLLYEHP 1235 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAV_ECOLI P41069 Protein traV (Precursor) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.0, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 8/12 (66%) Frame = -2 Query: 137 ALWIAPYIDNQD 148 ++W ++DN D Sbjct: 6873 SVWFIYFVDNND 6838 Score = 16.2 bits (30), Expect = 4.1, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 10/21 (47%) Frame = -2 Query: 15 LLYGCAGTSTEFECNATTSDT 35 LL CA +S TTS T Sbjct: 4092 LLISCAASSVISRVGITTSLT 4030 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAW_ECOLI P18472 Protein traW (Precursor) (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.28, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +1 Query: 127 INGDDPAQVAWMKR 140 I GD+PA AW R Sbjct: 646 ITGDNPAITAWNLR 687 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 13/28 (46%) Frame = +1 Query: 167 RVYFDQNGVLCQRLGIDQVPARVSAVPG 194 R Q+G+L + G D VSA G Sbjct: 6889 RTELSQHGILPEEWGGDSPFVHVSAKKG 6972 Score = 15.8 bits (29), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 113 NPLQYVPFNQTLY 125 NPL+ QT+Y Sbjct: 2131 NPLESNQHRQTIY 2093 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAX1_ECOLI P22709 Protein traX (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRAY1_ECOLI P06627 Protein traY (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBA_ECOLI P18034 Protein trbA (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.59 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.59, Method: Composition-based stats. Identities = 10/25 (40%), Positives = 14/25 (56%) Frame = -3 Query: 7 KMFTGVVLLIFVIIAGYFFSERNDR 31 K + LLIFVI YF S ++ + Sbjct: 539 KRLLSLSLLIFVI*PLYFPSNQDSK 465 Score = 15.8 bits (29), Expect = 3.6, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 26 SERNDR 31 SERND+ Sbjct: 1737 SERNDQ 1754 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBB_ECOLI P18035 Protein trbB (Precursor) (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -1 Query: 37 TQPAQPA 43 +QPAQPA Sbjct: 5737 SQPAQPA 5717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBC_ECOLI P18473 Periplasmic protein trbC (Precursor) (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBD_ECOLI P41070 Protein trbD (65 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 6.4, Method: Composition-based stats. Identities = 7/14 (50%), Positives = 7/14 (50%) Frame = +1 Query: 45 SESLPDNFNMTAVG 58 SES D AVG Sbjct: 6166 SESKADREEARAVG 6207 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBE_ECOLI Q05807 Protein trbE (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.7, Method: Composition-based stats. Identities = 4/13 (30%), Positives = 10/13 (76%) Frame = +3 Query: 3 KVIFTSNRFIDFL 15 +++FT+ + D+L Sbjct: 3609 RLLFTAEDYTDYL 3647 Score = 16.2 bits (30), Expect = 2.0, Method: Composition-based stats. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = +2 Query: 22 AIVISPVIIWSWDTV 36 A+ SP+ WD + Sbjct: 1322 AVTYSPINSRDWDAL 1366 Score = 15.8 bits (29), Expect = 2.4, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = -3 Query: 55 GVLLFILYFCFSALTDLQKPDE 76 GVL+ + + S TDL P E Sbjct: 5669 GVLM*VRFLRISICTDLLFPPE 5604 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBF_ECOLI P15068 Protein trbF (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBG_ECOLI P41072 Protein trbG (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBH_ECOLI P19381 Protein trbH (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 8/17 (47%) Frame = -3 Query: 77 DHSEITFRHLAFFCTIY 93 D + F H ++C Y Sbjct: 1172 DRFCLCFEHYCYYCGFY 1122 Score = 15.8 bits (29), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 7/15 (46%) Frame = +2 Query: 2 NRSTPVFNSQAAHTF 16 NRS+ F HT Sbjct: 1427 NRSSVQFTDSKGHTL 1471 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBI_ECOLI P18006 Protein trbI (128 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.1, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 93 QKHHAVIL 100 Q+H AVIL Sbjct: 719 QRHLAVIL 696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRBJ_ECOLI P18353 Protein trbJ (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -2 Query: 84 WISVSEIYY 92 WISV IY+ Sbjct: 6879 WISVWFIYF 6853 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TREA_ECOLI P13482 Periplasmic trehalase (3.2.1.28) (Alpha,alpha-trehalase) (Alpha,alpha-trehalose glucohydrolase) (Precursor) (565 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TREC_ECOLI P28904 Trehalose-6-phosphate hydrolase (3.2.1.93) (Alpha,alpha-phosphotrehalase) (551 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -1 Query: 361 YQGEEIGMTNPHFTR 375 Y I + NPHF+R Sbjct: 493 YIFLAIKIVNPHFSR 449 Score = 19.6 bits (39), Expect = 1.5, Method: Compositional matrix adjust. Identities = 13/31 (41%), Positives = 15/31 (48%) Frame = -1 Query: 505 LSREIQPWQAGQMRGNWQLVMHNYEEASPQP 535 LSR I P Q + QLV H+ SP P Sbjct: 4717 LSRIIIP-QNDINTFSPQLVRHSLNTCSPHP 4628 Score = 18.1 bits (35), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 10/15 (66%) Frame = -1 Query: 246 LMTVGEMSSTSLEHC 260 ++T+G+ + L HC Sbjct: 901 ILTIGDGEALVLHHC 857 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 3 HLPHWWQNGVIYQIYP 18 H P W + G + QI+P Sbjct: 6556 HDP*W*RRGRVKQIHP 6509 Score = 16.9 bits (32), Expect = 10.0, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -1 Query: 148 SAWRWHAESEQYYLHLF 164 S W H ++ YY+ LF Sbjct: 2503 SLWGHHIKNALYYVPLF 2453 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TREF_ECOLI P62601 Cytoplasmic trehalase (3.2.1.28) (Alpha,alpha-trehalase) (Alpha,alpha-trehalose glucohydrolase) (549 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRER_ECOLI P36673 HTH-type transcriptional regulator treR (Trehalose operon repressor) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = -1 Query: 102 FSPQLVAEHLG 112 FSPQLV L Sbjct: 4678 FSPQLVRHSLN 4646 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRKA_ECOLI P0AGI8 Trk system potassium uptake protein trkA (K(+)-uptake protein trkA) (458 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRKG_ECOLI P23849 Trk system potassium uptake protein trkG (485 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = +1 Query: 437 NMGLGFGATASS 448 +MG FGA ASS Sbjct: 2602 DMGASFGAGASS 2637 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRKH_ECOLI P0AFZ7 Trk system potassium uptake protein trkH (483 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -1 Query: 459 IANMLFGRL 467 IAN LFG++ Sbjct: 5269 IANTLFGKI 5243 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRMA_ECOLI P23003 tRNA (uracil-5-)-methyltransferase (2.1.1.35) (tRNA(M-5-U54)-methyltransferase) (RUMT) (366 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 12/25 (48%), Positives = 16/25 (64%) Frame = +1 Query: 9 EQYEAQLAEKVVRLQSMMAPFSDLV 33 E YE Q+A+ R+ +APFSD V Sbjct: 2272 EAYE-QVAK---RIGVPLAPFSDNV 2334 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -1 Query: 39 SPVSHYRMRA 48 SP+ HY ++ Sbjct: 2983 SPIEHYHLKV 2954 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRMB_ECOLI P0A8I5 tRNA (guanine-N(7)-)-methyltransferase (2.1.1.33) (tRNA(m7G46)-methyltransferase) (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.48 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.48, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 1/36 (2%) Frame = +1 Query: 3 NDVISPEFDENGRPLRRIR-SFVRRQGRLTKGQEHA 37 NDV+S FD+ G L + F + ++T G E + Sbjct: 2080 NDVLSKLFDDAGLILVDFKLEFGLFENKITLGDEFS 2187 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRMD_ECOLI P0A873 tRNA (guanine-N(1)-)-methyltransferase (2.1.1.31) (M1G-methyltransferase) (tRNA [GM37] methyltransferase) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = -3 Query: 204 IRRWRLKQSLGRTWLRRPEL 223 + ++R+ + WLR P+L Sbjct: 3188 LSKYRI*KKFF*KWLREPDL 3129 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRMH_ECOLI P0AGJ2 tRNA guanosine-2'-O-methyltransferase (2.1.1.34) (tRNA [Gm18] methyltransferase) (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +1 Query: 197 KVAKRKGLP 205 +VAKR G+P Sbjct: 2284 QVAKRIGVP 2310 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRMJ_ECOLI P0AE01 tRNA (cytidine/uridine-2'-O-)-methyltransferase trmJ (2.1.1.-) (tRNA Cm32/Um32 methyltransferase) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.84 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.84, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = +1 Query: 204 HPGQVMNKL 212 PGQV NKL Sbjct: 5536 EPGQVPNKL 5562 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/18 (27%), Positives = 8/18 (44%) Frame = -3 Query: 76 VVGTSARSRTLPWPMLDP 93 V+ + + PW DP Sbjct: 3488 VIDINTQCGLAPWNKFDP 3435 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 76 VVGTSARSRTLPW 88 V+G+S S L W Sbjct: 3568 VIGSSTSSTALTW 3530 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRPA_ECOLI P0A877 Tryptophan synthase alpha chain (4.2.1.20) (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRPB_ECOLI P0A879 Tryptophan synthase beta chain (4.2.1.20) (397 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 13/33 (39%) Frame = +2 Query: 159 VHSGSATLKDACNEALRDWSGSYETAHYMLGTA 191 +H G L +E LR + M+G+ Sbjct: 6689 IHQGMLRLHQCVHEVLRQQISWFWLLRPMMGSC 6787 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRPC_ECOLI P00909 Tryptophan biosynthesis protein trpCF (Indole-3-glycerol phosphate synthase) (IGPS) (4.1.1.48) (N-(5'-phospho-ribosyl)anthranilate isomerase) (PRAI) (5.3.1.24) (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.2, Method: Compositional matrix adjust. Identities = 11/38 (28%), Positives = 17/38 (44%) Frame = +3 Query: 146 YRQLAAVAHSLEMGVLTEVSNEEEQERAIALGAKVVGI 183 Y+ L A + + L + E ALG K+VG+ Sbjct: 3327 YKALFFYALGVSLSTLEQKLTEIISAPVKALGHKLVGV 3440 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRPE_ECOLI P00895 Anthranilate synthase component 1 (4.1.3.27) (Anthranilate synthase component I) (520 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRPG_ECOLI P00904 Anthranilate synthase component II (4.1.3.27) (Glutamine amidotransferase) (Anthranilate phosphoribosyltransferase) (2.4.2.18) (531 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +2 Query: 442 SYQLTAEDFG 451 SYQL DFG Sbjct: 1397 SYQLQVGDFG 1426 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 11/23 (47%) Frame = -3 Query: 330 DMNADKSRQALDELGVCFLFAPK 352 D+N S DEL C + PK Sbjct: 3134 DLNQRPSGYEPDELPSCSIPRPK 3066 Score = 17.3 bits (33), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = -1 Query: 144 LTINAHFNGMV 154 + +NAH NG++ Sbjct: 310 VALNAHLNGLL 278 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRPH_ECOLI P77766 Protein trpH (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.49, Method: Compositional matrix adjust. Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 3/36 (8%) Frame = +2 Query: 226 VAQCQQSPN---ERTQLAALARQHHLWASQGSDFHQ 258 + +C+ P+ ER +L+ L + +W HQ Sbjct: 1598 ILRCKN*PSCIAERLKLSTLLKILIIWCWSSVTIHQ 1705 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%), Gaps = 4/20 (20%) Frame = -2 Query: 174 PPQW----CTIEQAIDVIHH 189 P W C++EQA + I H Sbjct: 600 PLTWRL*RCSVEQAANNISH 541 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRPR_ECOLI P0A881 Trp operon repressor (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRUA_ECOLI P07649 tRNA pseudouridine synthase A (5.4.99.12) (tRNA-uridine isomerase I) (tRNA pseudouridylate synthase I) (PSU-I) (270 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.37, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 4/35 (11%) Frame = +1 Query: 150 RAAQCLLGEN-DFTSFRAVQCQS---RTPWRNVMH 180 + AQC+ G+N T++ C S R W+ V H Sbjct: 631 KKAQCITGDNPAITAWNLRYCASITARCRWQTVRH 735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRUB_ECOLI P60340 tRNA pseudouridine synthase B (5.4.99.-) (tRNA pseudouridine 55 synthase) (Psi55 synthase) (tRNA-uridine isomerase) (tRNA pseudouridylate synthase) (Protein p35) (314 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.72, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +3 Query: 188 GEKLGCGAHVIYLRRLAVSKY 208 G LGCG HV +L ++ + Sbjct: 4617 GHVLGCGEHVF---KLCLTSW 4670 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +1 Query: 85 RTDTSDADGQIVE 97 R DTS DGQ ++ Sbjct: 1690 RNDTSAMDGQRIQ 1728 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +3 Query: 126 YSALKYQ 132 +SALKYQ Sbjct: 4494 FSALKYQ 4514 Score = 16.2 bits (30), Expect = 9.5, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -2 Query: 7 RGRDIN 12 RGRD+N Sbjct: 3006 RGRDLN 2989 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRUC_ECOLI P0AA41 tRNA pseudouridine synthase C (5.4.99.-) (tRNA-uridine isomerase C) (tRNA pseudouridylate synthase C) (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.056 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.056, Method: Compositional matrix adjust. Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 7/57 (12%) Frame = +2 Query: 15 NKPSGWLVHRSWLDRDEK-------VVVMQTVRDQIGQHVFTAHRLDRPTSGVLLMG 64 NKP+ L++ + LDRD V ++ + +Q + LD +G L+M Sbjct: 5153 NKPADDLLNLASLDRDMAFKLAACGVCTLEDLAEQGVSDLADIEELDDEKAGKLIMA 5323 Score = 20.0 bits (40), Expect = 0.51, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = +2 Query: 150 GLVELEPKTG 159 GL+ L+PKTG Sbjct: 6644 GLITLKPKTG 6673 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 9 EWLVAVNKPS 18 +W+V V KPS Sbjct: 1706 QWMVNVFKPS 1735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRUD_ECOLI Q57261 tRNA pseudouridine synthase D (5.4.99.-) (tRNA-uridine isomerase D) (tRNA pseudouridylate synthase D) (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +1 Query: 214 ADVNQVVDGDALQL 227 A +NQV+D + QL Sbjct: 6379 ATINQVIDQETAQL 6420 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TRXB_ECOLI P0A9P4 Thioredoxin reductase (TRXR) (1.8.1.9) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +3 Query: 133 VSACATCDGFFYR 145 ++AC C G YR Sbjct: 6714 INACTRCSGNRYR 6752 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 116 SARYLGLP 123 ++RY GLP Sbjct: 5342 TSRYCGLP 5319 Score = 16.2 bits (30), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -1 Query: 157 TAVEEALYLSNI 168 TAV+ A+ SN+ Sbjct: 1351 TAVDRAISYSNV 1316 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TSGA_ECOLI P60778 Protein tsgA (393 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TSX_ECOLI P0A927 Nucleoside-specific channel-forming protein tsx (Precursor) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TTCA_ECOLI P76055 tRNA 2-thiocytidine biosynthesis protein ttcA (311 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TTDA_ECOLI P05847 L(+)-tartrate dehydratase subunit alpha (L-TTD alpha) (4.2.1.32) (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = +1 Query: 255 MGVHIESAARHP 266 MGV ESA R P Sbjct: 6499 MGVAGESALRAP 6534 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TTDB_ECOLI P0AC35 L(+)-tartrate dehydratase subunit beta (L-TTD beta) (4.2.1.32) (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.8, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = +2 Query: 36 CHRRLIELKRPIPYDLNG 53 CH L +PI L+G Sbjct: 305 CHYIKNYLSKPIQLPLSG 358 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TTDR_ECOLI P45463 HTH-type transcriptional activator ttdR (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -1 Query: 114 AITELMRNYPELQV 127 A+ + YP+LQV Sbjct: 1825 AVVPFVWGYPQLQV 1784 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 12/19 (63%), Gaps = 2/19 (10%) Frame = +1 Query: 237 EGKGIML--RSEWDVLPFL 253 E +G +L +++W + PF Sbjct: 3286 EFRGFLLFEKNDWAIRPFF 3342 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TTDT_ECOLI P39414 L-tartrate/succinate antiporter (Tartrate transporter) (Tartrate carrier) (487 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.034 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.034, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 19/41 (46%) Frame = -3 Query: 44 IVGLILEPVPGAVVAMVGISIIAILSPWLLFSPEQLAQPGF 84 +V I + G +A++ I+ L+PW F P GF Sbjct: 3533 LVANICTHINGDAIAVIDINTQCGLAPWNKFDPY*FVSQGF 3411 Score = 18.5 bits (36), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -3 Query: 82 PGFKFTAKSLSWAVS 96 PG +F SW++S Sbjct: 3977 PGLQFLVHVFSWSLS 3933 Score = 18.1 bits (35), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 12/24 (50%) Frame = +2 Query: 281 PLCSREKRMLGLMVGALVLWIFGG 304 P C E+ L ++ L++W + Sbjct: 1619 PSCIAERLKLSTLLKILIIWCWSS 1690 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TTUC_ECOLI P76251 Probable tartrate dehydrogenase/decarboxylase (TDH) (1.1.1.93) (4.1.1.73) (D-malate dehydrogenase [decarboxylating]) (1.1.1.83) (361 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 7/14 (50%) Frame = +3 Query: 37 ALSFEQMEWASCEY 50 ++ F +W C Y Sbjct: 2535 SIFFTDFDWTYCAY 2576 Score = 16.5 bits (31), Expect = 8.5, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 16/36 (44%) Frame = +1 Query: 299 ATIWAGAMMLDFLGNGDERFQQAHNGILAAIEEVIA 334 A+ AGA F +G F ILA + +++ Sbjct: 2611 ASFGAGASSTLFGSSGSGNFMTRMTAILATLFFIVS 2718 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TUSA_ECOLI P0A890 Sulfurtransferase tusA (2.8.1.-) (tRNA 2-thiouridine synthesizing protein A) (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TUSB_ECOLI P45530 Protein tusB (tRNA 2-thiouridine synthesizing protein B) (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.7, Method: Compositional matrix adjust. Identities = 4/15 (26%), Positives = 12/15 (80%) Frame = -2 Query: 69 QISNDIILIDYTDFV 83 + +ND + +DY++++ Sbjct: 6297 RFTNDNVAVDYSNWL 6253 Score = 14.6 bits (26), Expect = 6.0, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +2 Query: 83 VRLTVK 88 VRLTVK Sbjct: 2003 VRLTVK 2020 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TUSC_ECOLI P45531 Protein tusC (tRNA 2-thiouridine synthesizing protein C) (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -2 Query: 91 QTPFVVEATPLEADALR 107 + +EAT A ALR Sbjct: 4773 SSSTTIEATSAGAIALR 4723 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TUSD_ECOLI P45532 Sulfurtransferase tusD (2.8.1.-) (tRNA 2-thiouridine synthesizing protein D) (128 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 91 TEAGRL 96 TEAGRL Sbjct: 274 TEAGRL 291 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TUSE_ECOLI P0AB18 Sulfurtransferase tusE (2.8.1.-) (tRNA 2-thiouridine synthesizing protein E) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.33, Method: Composition-based stats. Identities = 22/108 (20%), Positives = 39/108 (36%), Gaps = 3/108 (2%) Frame = +1 Query: 5 EGKEIETDTEGYLKESSQWSEPLAVVIAENEGISLSPEHWEVVRFVRDFYLEFN---TSP 61 E +++ + EG +W EP+A I + + +H D +E + S Sbjct: 5965 EARKMAAENEG------KWPEPIAEQIELTDYHVTTSQHARAAEDENDAKVEGDRRSRSR 6126 Query: 62 AIRMLVKAMANKFGEEKGNSRYLYRLFPKGPAKQATKIAGLPKPVKCI 109 + + NK E K + + K K +T KPV + Sbjct: 6127 GSKTTKQKKGNKLSESKADREEARAVGRKSKRKPSTLQQSFNKPVAVV 6270 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TUS_ECOLI P16525 DNA replication terminus site-binding protein (Ter-binding protein) (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.77, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 10/15 (66%) Frame = -3 Query: 66 AQSLALRHFRHLFIQ 80 AQSL L R LF+Q Sbjct: 4256 AQSLLLVQLRVLFVQ 4212 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = +2 Query: 115 QHINKLKTTFEHIVTVESELPT 136 Q I+K + ++ ESE+PT Sbjct: 4079 QEISKEEAQQNTPISTESEIPT 4144 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TYPA_ECOLI P32132 GTP-binding protein typA/BipA (Tyrosine phosphorylated protein A) (607 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 49 2e-09 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 49.3 bits (116), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 48/168 (28%), Positives = 76/168 (45%) Frame = +1 Query: 8 IAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWND 67 + I+ HVDHGKT+L+D ++ + A + + + +E E G+ Sbjct: 6538 VTIMGHVDHGKTSLLD-CIRSTKVAAGEAGGITQHIGAYHVETENGM------------- 6675 Query: 68 YRINIVDTPGHADFGGEVERXXXXXXXXXXXXXAFDGPMPQTRFVTKKAFAYGLKPIVVI 127 + +DTPGHA F R A DG MPQT + A A + +VVI Sbjct: 6676 --VTFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAKVPVVVVI 6849 Query: 128 NKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIAGLD 175 NK+D+P A P+ + ++ + + + D P V+ SA G G+D Sbjct: 6850 NKIDKPNADPERLRTELSQHGILPE--EWGGDSPFVHVSAKKGT-GID 6984 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TYPH_ECOLI P07650 Thymidine phosphorylase (2.4.2.4) (TdRPase) (440 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 5/26 (19%) Frame = -3 Query: 122 GTLDKLESIP-----GFDIFPDDNRF 142 G L +L SI FD+ PDD R+ Sbjct: 959 GHLHRLGSILSNR**AFDLHPDDRRW 882 Score = 16.5 bits (31), Expect = 9.6, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +3 Query: 393 VDGQRPLAVIHAKDE 407 VDG+ + + KDE Sbjct: 3720 VDGEMIIVTVDGKDE 3764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TYRA_ECOLI P07023 T-protein (Chorismate mutase) (CM) (5.4.99.5) (Prephenate dehydrogenase) (PDH) (1.3.1.12) (373 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 11/24 (45%) Frame = +2 Query: 205 GSLAKQVVVWCDGRKPEAYQWFLE 228 +L K +++WC QW + Sbjct: 1649 STLLKILIIWCWSSVTIHQQWMVN 1720 Score = 16.9 bits (32), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 133 WDRAAD 138 WDRAAD Sbjct: 1996 WDRAAD 1979 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TYRB_ECOLI P04693 Aromatic-amino-acid aminotransferase (AROAT) (ARAT) (2.6.1.57) (397 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TYRP_ECOLI P0AAD4 Tyrosine-specific transport protein (Tyrosine permease) (403 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 371 KGGRPALVVVFLCGIA 386 + PAL +FLC +A Sbjct: 5725 QPALPALF*LFLCSLA 5678 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TYRR_ECOLI P07604 Transcriptional regulatory protein tyrR (513 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 34 DPIGRI 39 DPIGRI Sbjct: 2491 DPIGRI 2508 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= TYSY_ECOLI P0A884 Thymidylate synthase (TS) (TSase) (2.1.1.45) (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIA_ECOLI P0AGK1 4-hydroxybenzoate octaprenyltransferase (2.5.1.-) (4-HB polyprenyltransferase) (290 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.11, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 11/16 (68%) Frame = -3 Query: 135 MKRYTHLPQVVLGAAF 150 +KRY H+P V LG F Sbjct: 1211 VKRYRHVPLVPLGDRF 1164 Score = 19.6 bits (39), Expect = 0.69, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 13/25 (52%) Frame = -3 Query: 147 GAAFGWSIPMAFAAVSESVPLSCWL 171 G+AFG SI + L+CW+ Sbjct: 6878 GSAFGLSILLITTTTGTFAALACWM 6804 Score = 19.6 bits (39), Expect = 0.82, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 14/32 (43%) Frame = +2 Query: 45 QLWILAVFVAGVWLMRAAGCVVNDYADRKFDG 76 Q ++ ++ +WLM A C R+ G Sbjct: 506 QKSVMIKIISVLWLMLLAACSTEQRYKRQVSG 601 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 10/21 (47%) Frame = -2 Query: 77 HVKRTANRPLPSGAVTEKEAR 97 H+ R N PLPS K R Sbjct: 222 HIGRY*NNPLPSFLYKIKTCR 160 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIB_ECOLI P0A6A0 Probable ubiquinone biosynthesis protein ubiB (546 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = +1 Query: 515 FLLVSRPEWGLMPGWLMAGG 534 FLL + +W + P + M G Sbjct: 3298 FLLFEKNDWAIRPFFFMPWG 3357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIC_ECOLI P26602 Chorismate--pyruvate lyase (CL) (CPL) (4.1.3.40) (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 12/16 (75%) Frame = +2 Query: 34 SMTKRFEQQGKTVSVT 49 ++TKR QQG ++VT Sbjct: 1286 TVTKRDRQQG-NIAVT 1330 Score = 16.2 bits (30), Expect = 4.2, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 18/34 (52%) Frame = -3 Query: 93 TVVPVSTLSGPELALQKLGKTPLGRYLFTSSTLT 126 +V+P S P + L+ + LFT+++L+ Sbjct: 1931 SVIPNRFTSEPAVRLRMTHSIGIISNLFTNASLS 1830 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBID_ECOLI P0AAB4 3-octaprenyl-4-hydroxybenzoate carboxy-lyase (4.1.1.-) (Polyprenyl p-hydroxybenzoate decarboxylase) (497 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIE_ECOLI P0A887 Ubiquinone/menaquinone biosynthesis methyltransferase ubiE (2.1.1.-) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.33, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 3/34 (8%) Frame = -1 Query: 215 HPDQDTLKAMMQDAGFESV---DYYNLTAGVVAL 245 HP L ++ GFE V ++Y+L + + Sbjct: 3040 HPKASYLYELVPRTGFEPVSPIEHYHLKVACLPI 2939 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +1 Query: 219 DTLKAMMQDAGFESVDY 235 D L + DAG VD+ Sbjct: 2083 DVLSKLFDDAGLILVDF 2133 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/27 (22%), Positives = 13/27 (48%) Frame = +1 Query: 177 EPLSKAYDAYSFHVLPRIGSLVANDAD 203 EP+++ + +HV + A D + Sbjct: 6007 EPIAEQIELTDYHVTTSQHARAAEDEN 6087 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +3 Query: 129 FPDNTFDCITISFG 142 +PD ++ T SFG Sbjct: 1209 YPDLLYEHPTPSFG 1250 Score = 15.8 bits (29), Expect = 8.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +2 Query: 171 FSKPIIEPLS 180 SKPI PLS Sbjct: 326 LSKPIQLPLS 355 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIF_ECOLI P75728 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase (1.14.13.-) (391 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.86, Method: Compositional matrix adjust. Identities = 11/38 (28%), Positives = 17/38 (44%) Frame = +3 Query: 269 PLTRRHALQYVQPGLALVGDAAHTIHPLAGQGVNLGYR 306 P+T + L+ PGL + A G+ +NL R Sbjct: 3561 PITCPYNLEVSSPGLERLLFTAEDYTDYLGERINLTLR 3674 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 10/25 (40%) Frame = +2 Query: 196 ENDPGDSTWQQFTPDGPRAFLPLFD 220 N D+ W Q T LP+ D Sbjct: 818 NNRQNDTLWSQITTVMQNESLPIAD 892 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIG_ECOLI P17993 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64) (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (DHHB methyltransferase) (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIH_ECOLI P25534 2-octaprenyl-6-methoxyphenol hydroxylase (1.14.13.-) (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +1 Query: 330 CRYQQRRQSDREATIGV 346 CR+Q R S +T+G Sbjct: 712 CRWQTVRHSATNSTLGT 762 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UBIX_ECOLI P0AG03 3-octaprenyl-4-hydroxybenzoate carboxy-lyase (4.1.1.-) (Polyprenyl p-hydroxybenzoate decarboxylase) (189 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.12, Method: Compositional matrix adjust. Identities = 11/17 (64%), Positives = 13/17 (76%) Frame = -3 Query: 103 LLTRAADVVLKERRPLV 119 LLT+AADV + RR LV Sbjct: 1274 LLTQAADVAKRWRRVLV 1224 Score = 19.2 bits (38), Expect = 0.70, Method: Composition-based stats. Identities = 15/57 (26%), Positives = 25/57 (43%) Frame = -3 Query: 104 LTRAADVVLKERRPLVLCVRETPLHLGHLRLMTQAAEIGAVIMPPVPAFYHRPQSLD 160 LTR +DV+ K + V+ HL + L A I + + + RP S++ Sbjct: 428 LTRVSDVIGKRKVSAVINPSRLQAHLTAIGL----ASINNSLCSGIKRSFKRPASVN 270 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 166 TVNRVLDQFAITL 178 T+N+V+DQ L Sbjct: 6382 TINQVIDQETAQL 6420 Score = 16.2 bits (30), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 116 RPLVLCV 122 RPL++CV Sbjct: 3441 RPLLICV 3421 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UCPA_ECOLI P37440 Oxidoreductase ucpA (1.-.-.-) (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.69, Method: Compositional matrix adjust. Identities = 15/42 (35%), Positives = 17/42 (40%), Gaps = 8/42 (19%) Frame = -3 Query: 178 IRVNAICPGY---VRTPMAES-----IARQSNPEDPESVLTE 211 I VNA CPG V P + S I P P + L E Sbjct: 6719 IDVNAACPGVSKKVTIPFSVST**APICCVIPPASPAATLVE 6594 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 2/58 (3%) Frame = +2 Query: 29 HGANLILLDISPE--IEKLADELCGRGHRCTAVVADVRDPASVAAAIKRAKEKEGRID 84 G L + PE IE E+ + A +RDPAS A + +K RID Sbjct: 4442 RGPQLFISRSRPEMLIELFRIEVPEIDEELIEIKAAIRDPASRAKIAVKTNDK--RID 4609 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UDG_ECOLI P76373 UDP-glucose 6-dehydrogenase (UDP-Glc dehydrogenase) (UDP-GlcDH) (UDPGDH) (1.1.1.22) (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 5/33 (15%) Frame = -1 Query: 225 SRQIIEGVC-----LDPRIGNHYNNPSFGYGGY 252 S G C L ++ NHY + SF Y Y Sbjct: 4312 STDFFNGSCNNFPFLFTKLLNHYCSFSFAYFLY 4214 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UDP_ECOLI P12758 Uridine phosphorylase (UrdPase) (UPase) (2.4.2.3) (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.33, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 12/18 (66%) Frame = -3 Query: 25 PGDPDRVEKIAALMDKPV 42 P DP+RVE+ A + P+ Sbjct: 2657 PLDPNRVEEAPAPNEAPI 2604 Score = 19.6 bits (39), Expect = 0.64, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 8/11 (72%) Frame = +2 Query: 133 DFECTTALVEA 143 D EC T LVEA Sbjct: 4967 DEECATVLVEA 4999 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UGPA_ECOLI P10905 sn-glycerol-3-phosphate transport system permease protein ugpA (295 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UGPB_ECOLI P0AG80 sn-glycerol-3-phosphate-binding periplasmic protein ugpB (Precursor) (438 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = -2 Query: 93 ATMMASKAIKPVYDVFKEAGIQFD 116 AT + K I +FK+A QF+ Sbjct: 2202 ATAIGGKLITQGDFIFKQAKFQFE 2131 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UGPC_ECOLI P10907 sn-glycerol-3-phosphate import ATP-binding protein ugpC (3.6.3.20) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.52, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 18/30 (60%), Gaps = 2/30 (6%) Frame = -2 Query: 182 RRLKTTSLYVTHDQV--EAMTLAQRVMVMN 209 RRL+TTS+ + + +A +L +R +N Sbjct: 2439 RRLQTTSMLFKTEWILTKACSLCKRNFTLN 2350 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = -1 Query: 334 STLWLHLA 341 +TLWLHL+ Sbjct: 5407 ATLWLHLS 5384 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 245 GRVNNEGTHF 254 G +NN+ HF Sbjct: 1744 GMINNKFNHF 1773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UGPE_ECOLI P10906 sn-glycerol-3-phosphate transport system permease protein ugpE (281 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.46, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 100 FAIVWFRFP 108 +AIVW R P Sbjct: 1235 YAIVWQRLP 1261 Score = 20.0 bits (40), Expect = 0.59, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +1 Query: 178 RIDGASPMRFFCDIVFPLS 196 R+D P R C + PLS Sbjct: 922 RLDKMEPSR*RCPLCRPLS 978 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UGPQ_ECOLI P10908 Glycerophosphoryl diester phosphodiesterase (Glycerophosphodiester phosphodiesterase) (3.1.4.46) (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.27, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 63 NGWGVAGELNWQDLL 77 N WG++ L WQD + Sbjct: 6951 NKWGISSPLFWQDTV 6907 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -3 Query: 50 IFLLHDDNLERTSNG 64 IFL D E+ +NG Sbjct: 2351 IFLFADTLSEKGANG 2307 Score = 15.8 bits (29), Expect = 8.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +2 Query: 189 HLNHKLLNK 197 H N +LNK Sbjct: 1079 HYNRAMLNK 1105 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UHPA_ECOLI P0AGA6 Transcriptional regulatory protein uhpA (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -2 Query: 164 LSPKTVHVHRANLMEKL 180 LSPK RAN++ Sbjct: 5154 LSPKLSSFFRANVVSTF 5104 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UHPB_ECOLI P09835 Sensor protein uhpB (2.7.13.3) (500 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.0, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -2 Query: 6 SRLITVIACF 15 SRL+TVI F Sbjct: 1302 SRLVTVIPIF 1273 Score = 17.3 bits (33), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = +2 Query: 217 LPIIALAWHYGWQG 230 L ++ L W YG++ Sbjct: 2957 LEVVVLDWAYGFKS 2998 Score = 16.9 bits (32), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 101 SRYRHQRD 108 SR+R QRD Sbjct: 6673 SRFRFQRD 6650 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UHPC_ECOLI P09836 Regulatory protein uhpC (439 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 26 YWRRHILLTIW 36 YWR + LL +W Sbjct: 2690 YWRHYFLLLVW 2722 Score = 16.9 bits (32), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -1 Query: 24 YRYWRRHILLT 34 Y + R+HILL+ Sbjct: 4390 YVFTRQHILLS 4358 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UHPT_ECOLI P0AGC0 Hexose phosphate transport protein (463 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.67, Method: Compositional matrix adjust. Identities = 14/37 (37%), Positives = 20/37 (54%) Frame = +1 Query: 194 MFIFPSIIALIVGFIGLRYGSDSPESYGLGKAEELFG 230 + I +IALIV + G+D S+G G + LFG Sbjct: 2545 LLISIGLIALIV--LQQGKGADMGASFGAGASSTLFG 2649 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 9/11 (81%) Frame = -3 Query: 281 WSTVYAFQELK 291 W T++ FQ+++ Sbjct: 4982 WRTLHQFQDVR 4950 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UIDB_ECOLI P30868 Glucuronide carrier protein (Glucuronide permease) (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UIDC_ECOLI Q47706 Membrane-associated protein uidC (Precursor) (421 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 16/32 (50%) Frame = +2 Query: 244 PLDPNYTLKGELLGFYAQLEGLSRNTSQPNET 275 P+ P LKG + A + L + ++ N+T Sbjct: 743 PIQPLVLLKGSRIESTADISKLLLDNNRQNDT 838 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -2 Query: 134 GSLPYRIPLM 143 G + Y+IPLM Sbjct: 4434 GRISYKIPLM 4405 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 160 GYWALTPN 167 Y+AL+PN Sbjct: 5364 SYYALSPN 5341 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UIDR_ECOLI P0ACT6 HTH-type transcriptional regulator uidR (Uid operon repressor) (Gus operon repressor) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.1, Method: Compositional matrix adjust. Identities = 8/37 (21%), Positives = 18/37 (48%) Frame = -1 Query: 87 MVESIVSLTHEAFGQRALVVEIMAEGMRNPQVAAMLK 123 ++ LT +A +RAL + +NP+ +++ Sbjct: 3382 FCSNVDKLTPKA*KKRAL*PSHFFQITKNPETRGLIQ 3272 Score = 16.5 bits (31), Expect = 4.2, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 17/33 (51%) Frame = +1 Query: 7 TEAQPTRTRILNAAREIFSENGFHSASMKAICK 39 TEA R++ +E+F E + ++K CK Sbjct: 274 TEAGRLNERLMPLHKELFIEA--NPIAVKWACK 366 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAA_ECOLI P39301 Ascorbate-specific permease IIC component ulaA (Ascorbate-specific PTS system EIIC component) (465 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 12/23 (52%) Frame = +3 Query: 342 GILVACGSSILIIPGFIPMFFSN 364 G L CG +ILI +++ N Sbjct: 444 GCLEKCGFTILIARKI*WLYYKN 512 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAB_ECOLI P69822 Ascorbate-specific phosphotransferase enzyme IIB component (2.7.1.69) (Ascorbate-specific PTS system EIIB component) (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAC_ECOLI P69820 Ascorbate-specific phosphotransferase enzyme IIA component (2.7.1.-) (PTS system ascorbate-specific EIIA component) (154 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -1 Query: 63 GLAMPHGRPEE 73 +A PH RP++ Sbjct: 6793 SVA*PHHRPQQ 6761 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAD_ECOLI P39304 3-keto-L-gulonate-6-phosphate decarboxylase ulaD (4.1.1.85) (3-dehydro-L-gulonate-6-phosphate decarboxylase) (KGPDC) (L-ascorbate utilization protein D) (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.097 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.097, Method: Compositional matrix adjust. Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%) Frame = +3 Query: 80 NADWVTVICCADINTAKGA-LDVAKEFNGDVQIELTG 115 N D VTV CAD++ A LDV + +E++ Sbjct: 3486 NCDGVTVDMCADVSYQVSAVLDVEEPITCPYNLEVSS 3596 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAE_ECOLI P39305 L-ribulose-5-phosphate 3-epimerase ulaE (5.1.3.22) (L-xylulose-5-phosphate 3-epimerase) (L-ascorbate utilization protein E) (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAF_ECOLI P39306 L-ribulose-5-phosphate 4-epimerase ulaF (5.1.3.4) (Phosphoribulose isomerase) (L-ascorbate utilization protein F) (228 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.43, Method: Compositional matrix adjust. Identities = 8/31 (25%), Positives = 12/31 (38%) Frame = +1 Query: 147 IIETLGNAEPLHTPGIVVYQHGPFAWGKDAH 177 + E + LH P + F W +AH Sbjct: 1954 LFELFLKNDQLHDPIVSEAYCKAFGWASEAH 2046 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAG_ECOLI P39300 Probable L-ascorbate-6-phosphate lactonase ulaG (3.1.1.-) (L-ascorbate utilization protein G) (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.58 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.58, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = -2 Query: 302 KKDRLKYGFKPFIWQVGGKFT 322 + D YGF+PF + FT Sbjct: 6033 QFDLFGYGFRPFTFIFCCHFT 5971 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +3 Query: 239 EHQIDVALGSYGEN 252 EH + L S+GEN Sbjct: 4638 EHVFKLCLTSWGEN 4679 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ULAR_ECOLI P0A9W0 HTH-type transcriptional regulator ulaR (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -2 Query: 143 GQYNKSQSITLSPQGSE 159 ++NKS + LSP+ S Sbjct: 5184 AKFNKSSAGLLSPKLSS 5134 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = +2 Query: 23 EKVVERLGISPATA 36 EK+ E L I+ ATA Sbjct: 3899 EKIFEALEIALATA 3940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UMUC_ECOLI P04152 Protein umuC (422 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.10 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.10, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 17/26 (65%) Frame = +2 Query: 277 KLRSEHQYCRFISTFIKTSPFALNEP 302 + R++H+YCR+ ++T + ++P Sbjct: 3722 RWRNDHRYCRWKR*SVRTKQYPQSKP 3799 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 13/29 (44%), Gaps = 10/29 (34%) Frame = -1 Query: 394 QGIQQQWQMK----------RAMLSPRYT 412 Q +Q Q+ +K RA+ PRY Sbjct: 2380 QSVQAQFHLKSFYSLIRCQKRALTEPRYV 2294 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UMUD_ECOLI P0AG11 Protein umuD (3.4.21.-) (Protein umuD') (139 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.45, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = -1 Query: 78 ITASHGDIVIAAV 90 ITA GDI I +V Sbjct: 976 ITACKGDIFIGSV 938 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UNG_ECOLI P12295 Uracil-DNA glycosylase (UDG) (3.2.2.-) (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = +3 Query: 121 LLNTVLTVRAGQAHSHASLGW 141 L L R G+ HA+L W Sbjct: 2904 LKKCYLQYRGGEIGRHATLRW 2966 Score = 15.8 bits (29), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -1 Query: 160 VFLLWGSHAQ 169 +F LWG H + Sbjct: 2509 LFSLWGHHIK 2480 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UPPP_ECOLI P60932 Undecaprenyl-diphosphatase (3.6.1.27) (Undecaprenyl pyrophosphate phosphatase) (Bacitracin resistance protein) (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 162 CFQCLALWPGF 172 CF+ L W GF Sbjct: 3916 CFKNLLTWKGF 3884 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UPPS_ECOLI P60472 Undecaprenyl pyrophosphate synthetase (UPP synthetase) (2.5.1.31) (Di-trans,poly-cis-decaprenylcistransferase) (Undecaprenyl diphosphate synthase) (UDS) (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.41, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +2 Query: 169 PDQIDEEMLNQHVCMHEL 186 P I + ML H C+HE+ Sbjct: 6680 PS*IHQGMLRLHQCVHEV 6733 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -1 Query: 234 NAFANRERRFGGTEPGDETA 253 +A NR R PGDET+ Sbjct: 3628 SAVNNRRSR-----PGDETS 3584 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UPP_ECOLI P0A8F0 Uracil phosphoribosyltransferase (2.4.2.9) (UMP pyrophosphorylase) (UPRTase) (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -1 Query: 129 VDPMLATGGSVIATID 144 V P+L GGS ++ Sbjct: 5899 VQPLLPHGGSCHFVVE 5852 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= URAA_ECOLI P0AGM7 Uracil permease (Uracil transporter) (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 17/32 (53%) Frame = -3 Query: 265 RSMFANGLSTVISGFFGSTPNTTYGENIGVMA 296 +S F+N SGF + P + E++G+ + Sbjct: 3323 QSFFSNNKKPRNSGFDTTGPYSPLKESLGMTS 3228 Score = 16.9 bits (32), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -2 Query: 114 GWLDVLFPPAAMGAIVA 130 WL +FP A+ ++A Sbjct: 2790 SWLTQIFPLTALTVLLA 2740 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= URK_ECOLI P0A8F4 Uridine kinase (2.7.1.48) (Uridine monophosphokinase) (Cytidine monophosphokinase) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USG_ECOLI P08390 USG-1 protein (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 12/17 (70%) Frame = +1 Query: 145 IDQGGLSRISVTSLISA 161 I +GG ISVT+ ++A Sbjct: 178 IQKGGQGIISVTANVAA 228 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USHA_ECOLI P07024 Protein ushA (UDP-sugar hydrolase) (3.6.1.45) (UDP-sugar pyrophosphatase) (UDP-sugar diphosphatase) (5'-nucleotidase) (5'-NT) (3.1.3.5) (Precursor) (550 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.92, Method: Compositional matrix adjust. Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 3/37 (8%) Frame = +1 Query: 364 IGETNG---RLEGDRDKVRFVQTNMGRLILAAQMDRT 397 +G+ NG ++ D+D RFV + RL DRT Sbjct: 481 LGKYNGYITKISNDKDNKRFVADVVSRL-----FDRT 576 Score = 17.7 bits (34), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 216 THMGHYDNGE 225 T MGH D+G+ Sbjct: 6541 TIMGHVDHGK 6570 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USPA_ECOLI P0AED0 Universal stress protein A (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 12/24 (50%) Frame = +3 Query: 109 CGHHQDFWSKLMSSARQLINTVHV 132 CG+ + WS L+N+V + Sbjct: 2598 CGYGRFIWSGC------LLNSVWI 2651 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USPB_ECOLI P0A8S5 Universal stress protein B (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.74, Method: Composition-based stats. Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 2/43 (4%) Frame = +1 Query: 7 LFWALCVVCIVNMARYFSSLRALLV--VLRNCDPLLYQYVDGG 47 L W CV+ + LL + + D L+ Q+ D G Sbjct: 5338 LVWR*CVITVAGRNSMTDVTIKLLAAEISTSVDRLIQQFADAG 5466 Score = 16.2 bits (30), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 63 VWYIYAQRYRDHHD 76 VW+IY D+ D Sbjct: 6870 VWFIYFVDNNDNGD 6829 Score = 15.8 bits (29), Expect = 3.3, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -1 Query: 69 QRYRDHHDDEFIRR 82 + Y D HD + RR Sbjct: 6574 KSYHDQHDP*W*RR 6533 Score = 14.2 bits (25), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -1 Query: 30 LVVLRNCD 37 LVV NCD Sbjct: 4600 LVVSFNCD 4577 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USPC_ECOLI P46888 Universal stress protein C (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = -1 Query: 61 MHEETQSFLDKLIQDAGYPVD 81 +H SFL +L++ P D Sbjct: 5395 LHLSCCSFLLQLLRIIAKPAD 5333 Score = 15.8 bits (29), Expect = 4.4, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 6/24 (25%) Frame = -2 Query: 64 ETQSF------LDKLIQDAGYPVD 81 +T+SF + KLI D +P++ Sbjct: 1803 DTRSFKSVHNEMIKLIIDHSFPIE 1732 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USPD_ECOLI P0AAB8 Universal stress protein D (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 9/20 (45%) Frame = +1 Query: 121 PAYRGMINKMSADLLIVPFI 140 P +RG + D I PF Sbjct: 3283 PEFRGFLLFEKNDWAIRPFF 3342 Score = 16.2 bits (30), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 16 DALLVNKA 23 DALL+NK Sbjct: 441 DALLINKG 418 Score = 15.8 bits (29), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 134 LLIVPFIDK 142 LLI+PF K Sbjct: 1757 LLIIPFRSK 1731 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USPE_ECOLI P0AAC0 Universal stress protein E (316 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +3 Query: 23 RAVYLHQRIGGKIKAF 38 + V LH+R+G +K + Sbjct: 4800 KKVILHKRLGAMVKMY 4847 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -3 Query: 14 NQDDQPALRRA 24 NQD +PAL +A Sbjct: 479 NQDSKPALFKA 447 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USPF_ECOLI P37903 Universal stress protein F (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= USPG_ECOLI P39177 Universal stress protein G (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UUP_ECOLI P43672 ABC transporter ATP-binding protein uup (635 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.0, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 3/36 (8%) Frame = +1 Query: 365 MLGQLQADSGRIHVGTKLEVAYFDQHRA---ELDPD 397 +L +L D+G I V KLE F+ E PD Sbjct: 2086 VLSKLFDDAGLILVDFKLEFGLFENKITLGDEFSPD 2193 Score = 17.7 bits (34), Expect = 7.5, Method: Compositional matrix adjust. Identities = 3/14 (21%), Positives = 10/14 (71%) Frame = +2 Query: 314 RSGKIVFEMEDVCY 327 ++GK++ ++C+ Sbjct: 5300 KAGKLIMAARNICW 5341 Score = 17.3 bits (33), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = +2 Query: 376 IHVGTKLEVAYFDQHRA 392 +HVGTK+ F ++ Sbjct: 3365 VHVGTKINRDNFSTGKS 3415 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UVRA_ECOLI P0A698 UvrABC system protein A (UvrA protein) (Excinuclease ABC subunit A) (940 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 7.9, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 12/28 (42%) Frame = -2 Query: 297 NPELSLAGGAIRGWDRRNFYYFQMLKSL 324 + LSL A R W R F F L + Sbjct: 2856 STSLSLRNIAARFWRRAYFLIFSWLTQI 2773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UVRB_ECOLI P0A8F8 UvrABC system protein B (Protein uvrB) (Excinuclease ABC subunit B) (673 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = +2 Query: 96 YQPEAYVPSSDTFIEK 111 Y PE+ +P D+F +K Sbjct: 5027 YVPESELPEIDSFDKK 5074 Score = 19.2 bits (38), Expect = 2.6, Method: Compositional matrix adjust. Identities = 13/27 (48%), Positives = 16/27 (59%) Frame = +3 Query: 447 ERVLVTTLTKRMAEDLTEYLEEHGERV 473 ER+L T AED T+YL GER+ Sbjct: 3606 ERLLFT------AEDYTDYL---GERI 3659 Score = 19.2 bits (38), Expect = 2.9, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = +1 Query: 340 SHVTIPQIGGMYRG 353 SH+ + ++ +YRG Sbjct: 1594 SHIEMQKLAELYRG 1635 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UVRC_ECOLI P0A8G0 UvrABC system protein C (Protein uvrC) (Excinuclease ABC subunit C) (610 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.64, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 12/15 (80%) Frame = -2 Query: 39 LKKRLSSYFRSNLAS 53 L +LSS+FR+N+ S Sbjct: 5154 LSPKLSSFFRANVVS 5110 Score = 19.6 bits (39), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 11/27 (40%) Frame = -1 Query: 104 FIFLSGDTHPRLAMHRGAKHAKGEYFG 130 F+F P HR ++H K F Sbjct: 5653 FVFYEFQFVPIYFFHRSSEHLKCSVFS 5573 Score = 19.2 bits (38), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -3 Query: 104 FIFLSGDTHPRLAMHRG 120 F+F G THP+ +G Sbjct: 3383 FLFQRGQTHPQGIKKKG 3333 Score = 18.9 bits (37), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = +3 Query: 378 QRLTALASVLKL 389 QRL L+++LKL Sbjct: 4932 QRLICLSNILKL 4967 Score = 18.1 bits (35), Expect = 5.1, Method: Compositional matrix adjust. Identities = 12/49 (24%), Positives = 23/49 (46%) Frame = -1 Query: 531 QHIRDESHDHAIGGHRKKRAKVKNTSSLETIEGVGPKRRQMLLKYMGGL 579 QH R + + +G + ++NTS+ T V ++ +L Y G+ Sbjct: 4486 QHFRT*TANK*LGTSCFRTYLIQNTSNAVTRAYVFTRQHILLSNYSFGV 4340 Score = 17.3 bits (33), Expect = 8.2, Method: Compositional matrix adjust. Identities = 5/19 (26%), Positives = 12/19 (63%) Frame = -3 Query: 520 LPPDSPALHVIQHIRDESH 538 +PP SPA +++ ++ + Sbjct: 6629 IPPASPAATLVERMQSSNE 6573 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UVRD_ECOLI P03018 DNA helicase II (3.6.1.-) (720 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.9, Method: Compositional matrix adjust. Identities = 12/39 (30%), Positives = 16/39 (41%) Frame = +1 Query: 671 KLGQRVRHAKFGEGTIVNMEGSGEHSRLQVAFQGQGIKW 709 +L QRV KF E +N H L + +KW Sbjct: 241 ELCQRVAEGKFTEAGRLNERLMPLHKELFIEANPIAVKW 357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UVRY_ECOLI P0AED5 Response regulator uvrY (218 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UXAA_ECOLI P42604 Altronate hydrolase (4.2.1.7) (Altronic acid hydratase) (495 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = -2 Query: 268 DGLSGITANPMLGR 281 DGL + +P++GR Sbjct: 6807 DGLDRLWHDPIIGR 6766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UXAB_ECOLI P0A6L7 Altronate oxidoreductase (1.1.1.58) (Tagaturonate reductase) (Tagaturonate dehydrogenase) (483 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = +1 Query: 86 ARLIRSVNREISVYSEYD 103 A L RSV RE+ E D Sbjct: 5893 AELKRSVEREVRRKIEED 5946 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -1 Query: 371 ILPQLLAGQKA 381 +LP LLAG +A Sbjct: 6937 LLPTLLAGYRA 6905 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 14/31 (45%), Gaps = 4/31 (12%) Frame = +1 Query: 126 ISYHAGDK----FDDAPAVSYPAKLTRLLFE 152 +SY D FDDA + KL LFE Sbjct: 2065 LSYQVNDVLSKLFDDAGLILVDFKLEFGLFE 2157 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UXAC_ECOLI P0A8G3 Uronate isomerase (5.3.1.12) (Glucuronate isomerase) (Uronic isomerase) (470 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.65, Method: Compositional matrix adjust. Identities = 18/79 (22%), Positives = 35/79 (44%), Gaps = 17/79 (21%) Frame = -1 Query: 326 MAEELSKLLSKQNEENLL-PKTILYCLN---PRDNEV---LGTMIGNFQGE--------- 369 + ELS+++ QN+ N P+ + + LN P N + T++ +F + Sbjct: 4729 VKNELSRIIIPQNDINTFSPQLVRHSLNTCSPHPNTCPYRIDTLVVSFNCDFST*RWVTN 4550 Query: 370 -GMPGKMQFGSGWWFNDQK 387 + F + W+FN +K Sbjct: 4549 CRLNFDQLFVNFWYFNAEK 4493 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 3/10 (30%), Positives = 10/10 (100%) Frame = +1 Query: 101 YHWTHLELRR 110 ++W+H+E+++ Sbjct: 1585 HYWSHIEMQK 1614 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UXUA_ECOLI P24215 Mannonate dehydratase (4.2.1.8) (D-mannonate hydrolase) (394 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +1 Query: 56 GLVWSVVESVPIHED 70 GL + SVPIH D Sbjct: 2980 GLRVQIPSSVPIHRD 3024 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = +3 Query: 6 RWYGPNDP 13 RWYG N P Sbjct: 6369 RWYGNNQP 6392 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UXUB_ECOLI P39160 D-mannonate oxidoreductase (1.1.1.57) (Fructuronate reductase) (486 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 10/13 (76%) Frame = +2 Query: 267 VNGRPDWDKVGAQ 279 +N R DWD +GAQ Sbjct: 1340 INSR-DWDALGAQ 1375 Score = 18.9 bits (37), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -1 Query: 255 EPFRQWVIEDNFVN 268 EPF +W I+ F+ Sbjct: 640 EPF*RWCIKIGFIT 599 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = +1 Query: 274 DKVGAQFVADVV 285 DK +FVADVV Sbjct: 520 DKDNKRFVADVV 555 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= UXUR_ECOLI P39161 Uxu operon transcriptional regulator (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.6, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 9/12 (75%) Frame = +2 Query: 175 RENNPMWIQLHS 186 R+N+ +W Q+ + Sbjct: 824 RQNDTLWSQITT 859 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= VACJ_ECOLI P76506 Lipoprotein vacJ (Precursor) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.063 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.063, Method: Compositional matrix adjust. Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 6/41 (14%) Frame = -3 Query: 103 FFLNTI------LGMGGFIDVAGMANPKLQRTEPHRFGSTL 137 FFL + L F+ VA ++ LQR HR GS L Sbjct: 1052 FFLVVVNPVISPLKQADFLAVAH*SDNGLQRGHLHRLGSIL 930 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = -2 Query: 98 VHFTRFFLN 106 HFTRFF N Sbjct: 5982 CHFTRFFSN 5956 Score = 16.9 bits (32), Expect = 3.8, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 15/31 (48%) Frame = -3 Query: 101 TRFFLNTILGMGGFIDVAGMANPKLQRTEPH 131 TRF L + + G V+ + NP R + H Sbjct: 440 TRF*LTRVSDVIGKRKVSAVINP--SRLQAH 354 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +3 Query: 179 PMSVGKWTLEGI 190 P VGKW+++ + Sbjct: 4011 PSVVGKWSVKWL 4046 Score = 16.5 bits (31), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -1 Query: 48 DPYIVRPVAV 57 DP++ +PVA+ Sbjct: 6439 DPFLQQPVAL 6410 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= VES_ECOLI P76214 Protein ves (Various environmental stresses-induced protein) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +2 Query: 165 LRLLQPQGKLLFSEINW 181 LRL Q ++L +I+W Sbjct: 6704 LRLHQCVHEVLRQQISW 6754 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= VIAA_ECOLI P0ADN0 Protein viaA (VWA domain protein interacting with AAA ATPase) (483 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = +3 Query: 102 LNSPWAEQARQLVD 115 LNS W RQL D Sbjct: 2634 LNSVWI*WFRQLYD 2675 Score = 17.7 bits (34), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +2 Query: 162 RMTLSGQLEPILADNNTAAGRLW 184 R+ + + +L DNN LW Sbjct: 776 RIESTADISKLLLDNNRQNDTLW 844 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -3 Query: 267 PELATLGITEL 277 P ATL +TE+ Sbjct: 233 PPAATLAVTEI 201 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= VISC_ECOLI P25535 Protein visC (1.-.-.-) (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.39, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 5/33 (15%) Frame = -3 Query: 211 ILAFLPLSDPH-----LCSIVWSLSPEEAQRMQ 238 ++ LP+ PH LC+ + S++ E+ ++ Q Sbjct: 2516 VVPILPMGSPHKKCSLLCASISSIAKEDCKQPQ 2418 Score = 20.8 bits (42), Expect = 0.56, Method: Compositional matrix adjust. Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 2/60 (3%) Frame = +2 Query: 113 IHYALWNKAHQSSDITLLAPAELQQVAWGENETFLTL--KDGSMLTARLVIGADGANSWL 170 I LW+ + +APAE+ + E+ + + ++G+ A IG +G N L Sbjct: 4682 IDIVLWDDNPAQFVLNAMAPAEVASIVVDEDAKTMNIAVEEGNSAQA---IGRNGQNVRL 4852 Score = 16.9 bits (32), Expect = 7.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +2 Query: 16 LAVACGLQ 23 +AVACG++ Sbjct: 2192 MAVACGIK 2215 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= VSR_ECOLI P09184 Very short patch repair protein (3.1.-.-) (DNA mismatch endonuclease) (Vsr mismatch endonuclease) (V.EcoKDcm) (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +1 Query: 127 DEALTERLE 135 +EAL +RLE Sbjct: 1834 NEALVKRLE 1860 Score = 15.8 bits (29), Expect = 5.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -3 Query: 59 CVIFTHGCFW 68 C+ F H C++ Sbjct: 1163 CLCFEHYCYY 1134 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= VXIS_ECOLI P75970 Excisionase-like protein from lambdoid prophage 14 (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +3 Query: 10 WAAEKYRSNPPSVSTLRR 27 ++A KY+ S S LRR Sbjct: 4494 FSALKYQKLTKS*SKLRR 4547 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WAAU_ECOLI P27242 Lipopolysaccharide 1,2-N-acetylglucosaminetransferase (2.4.1.56) (357 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 12/26 (46%) Frame = +1 Query: 332 PTYTVKDIDTETLTNSVKRLSCIDKK 357 P Y V + +T +R+ D+K Sbjct: 1666 PNYLVLEFRNDTSAMDGQRIQAFDRK 1743 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = -1 Query: 216 LGAKKICRLTF 226 + ++CR+TF Sbjct: 4834 IAPNRLCRITF 4802 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -1 Query: 222 CRLTFEQIKV 231 CRL F+Q+ V Sbjct: 4549 CRLNFDQLFV 4520 Score = 16.5 bits (31), Expect = 7.9, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +1 Query: 28 NKINNQITDPAQVKSCLIIH 47 NKI+ DP ++++ L H Sbjct: 6850 NKIDKPNADPERLRTELSQH 6909 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WBBJ_ECOLI P37750 Putative lipopolysaccharide biosynthesis O-acetyl transferase wbbJ (2.3.1.-) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 2/42 (4%) Frame = -1 Query: 1 MILKLAKRYGLCGFIRLVRD--VLLTRVFYRNCRIIRFPCYI 40 LKL R+ + +R+ +LT R CRI F CY+ Sbjct: 4912 FFLKLVDRHHIKFPATQLRN*AYILTIAPNRLCRITFFNCYV 4787 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +1 Query: 133 VVIGQRVWLGENVTV 147 V+ + V +GE VTV Sbjct: 6262 AVVNRDVIIGETVTV 6306 Score = 16.2 bits (30), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -2 Query: 51 NFTSGVGLRLDAFGRGVIF 69 +FTS +F G+IF Sbjct: 6138 SFTSPAATTAISFNLGIIF 6082 Score = 15.8 bits (29), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 14/26 (53%) Frame = +3 Query: 116 MSSPNIPPDMRTLESSAVVIGQRVWL 141 +SSP + + T E +G+R+ L Sbjct: 3588 VSSPGLERLLFTAEDYTDYLGERINL 3665 Score = 15.8 bits (29), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +1 Query: 62 AFGRGVIFFSDNVQV 76 +FGR IFF + + Sbjct: 4984 SFGRSRIFFFRRISL 5028 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WBBL_ECOLI P36667 Putative lipopolysaccharide biosynthesis glycosyltransferase wbbL (2.4.-.-) (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +2 Query: 207 VRLHYVPAFHAIH 219 +RLH + AF +IH Sbjct: 2363 LRLHRLQAFVSIH 2401 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAA_ECOLI P77414 Putative colanic acid biosynthesis glycosyl transferase wcaA (279 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = -3 Query: 105 VFLAHKQQ 112 VFL+HK+Q Sbjct: 2219 VFLSHKRQ 2196 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 11/30 (36%) Frame = -1 Query: 100 PNRLSVFLAHKQQLVTHAFLYANDYVCQGE 129 P + L H FLY N + C G Sbjct: 4276 PFLFTKLLNHYCSFSFAYFLYNNLFRCLGS 4187 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 142 KSPYSRRLFYK 152 K PYS +F+K Sbjct: 3339 KGPYSPVIFFK 3307 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 14/27 (51%) Frame = +2 Query: 24 IKSVLRQDYSNWEMIIVDDCSTSWEQL 50 I+SVL Q+Y + C S E++ Sbjct: 6875 IQSVLEQNY-----LSTVSCQKSGEEI 6940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAB_ECOLI P0ACC9 Putative colanic acid biosynthesis acetyltransferase wcaB (2.3.1.-) (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = +1 Query: 5 LRANSWSLRP 14 N W++RP Sbjct: 3307 FEKNDWAIRP 3336 Score = 15.8 bits (29), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -1 Query: 25 HFCSVWRKKNVLNNLW 40 H+CS + NNL+ Sbjct: 4249 HYCSFSFAYFLYNNLF 4202 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAC_ECOLI P71237 Putative colanic acid biosynthesis glycosyl transferase wcaC (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 16/72 (22%), Positives = 28/72 (38%), Gaps = 7/72 (9%) Frame = -2 Query: 131 WTLHDHWSVTGRCAFT-------DGCEGWKTGCQKCPTLNNYPPVKIDRAHQLVAGKRQL 183 +T H H ++T +C F + + + +C +NN +D H Sbjct: 6516 FTRHSHIAITHQCFFEFIFTTQDNFMTHFFSNQLRCFLINNL----VDCCH--TT*FHHC 6355 Query: 184 FREMLALGCQFI 195 F ++ A C FI Sbjct: 6354 FNDLRAFNCHFI 6319 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 13/55 (23%), Positives = 21/55 (38%) Frame = +1 Query: 90 TRTAGPVVLHFHVLHSYWLNLKSVVRFCEKVKNHKPDVTLVWTLHDHWSVTGRCA 144 RTAG +V + + LN F + + H P V+ + W+ A Sbjct: 1888 NRTAGSLVKRLGITENQVLNHPLFELFLKNDQLHDPIVSEAYCKAFGWASEAHLA 2052 Score = 16.9 bits (32), Expect = 7.2, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 13/28 (46%) Frame = +1 Query: 118 EKVKNHKPDVTLVWTLHDHWSVTGRCAF 145 + + P +T W L S+T RC + Sbjct: 640 QCITGDNPAIT-AWNLRYCASITARCRW 720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAD_ECOLI P71238 Putative colanic acid polymerase (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +1 Query: 254 LVGVVIAFPYISTRLG 269 L GV+ A+ ++ R+G Sbjct: 2257 LGGVIEAYEQVAKRIG 2304 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -2 Query: 325 DNGLYLLIIY 334 DNG+ LII+ Sbjct: 2001 DNGIVQLIIF 1972 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAE_ECOLI P71239 Putative colanic acid biosynthesis glycosyl transferase wcaE (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAF_ECOLI P0ACD2 Putative colanic acid biosynthesis acetyltransferase wcaF (2.3.1.-) (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +2 Query: 54 IGKNVVIRPSVK 65 +GK + IRP ++ Sbjct: 716 VGKQLDIRPPIQ 751 Score = 16.5 bits (31), Expect = 3.6, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 14/27 (51%) Frame = +1 Query: 35 SPQVLYRWRAFLLRLFGAKIGKNVVIR 61 SPQ L WR ++ + G +V I+ Sbjct: 5323 SPQYLLVWR*CVITVAGRNSMTDVTIK 5403 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAI_ECOLI P32057 Putative colanic acid biosynthesis glycosyl transferase wcaI (407 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 14/28 (50%) Frame = -2 Query: 107 DRIIGVVPTLFCAPGMRLLAKLSGARTV 134 R++ V+P A G R GART+ Sbjct: 1302 SRLVTVIPIFANAGGRRCQTMA*GARTI 1219 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +2 Query: 34 EVRVITAPPYYPQW 47 V ++ APP P W Sbjct: 6509 RVNLLYAPPSSPSW 6550 Score = 16.5 bits (31), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 11/15 (73%) Frame = -2 Query: 248 NVIEAADRLRDEPLI 262 ++++ DRL +P+I Sbjct: 6816 SMLDGLDRLWHDPII 6772 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAJ_ECOLI P71241 Putative colanic biosynthesis UDP-glucose lipid carrier transferase (464 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 23/78 (29%), Positives = 32/78 (41%), Gaps = 2/78 (2%) Frame = +3 Query: 203 GKIHNVYIAMQMCDGARVKKLVHQLADTTCSVLLIPDVFTFNILHSRLEEMNGVPVVPLY 262 G+ + I + CDG V AD + V + DV EE P+ Y Sbjct: 3453 GRQSTLRIYIDNCDGVTV----DMCADVSYQVSAVLDV----------EE----PITCPY 3578 Query: 263 DTPLS--GVNRLLKRAED 278 + +S G+ RLL AED Sbjct: 3579 NLEVSSPGLERLLFTAED 3632 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAK_ECOLI P71242 Colanic acid biosynthesis protein wcaK (2.-.-.-) (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAL_ECOLI P71243 Putative colanic acid biosynthesis glycosyltransferase wcaL (2.4.-.-) (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +1 Query: 281 VEMPGFKPSHEVKAMLDD 298 V++P P H +LDD Sbjct: 2989 VQIPSSVPIHRDSLLLDD 3042 Score = 18.5 bits (36), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +1 Query: 180 PISDLWAGRLQKMGCPR 196 + L+AGR + GC R Sbjct: 5218 SVRGLYAGRSCRTGC*R 5268 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WCAM_ECOLI P71244 Colanic acid biosynthesis protein wcaM (464 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = +3 Query: 443 DRINHHIVNVEKINF 457 DR NH + +NF Sbjct: 5385 DRCNHKVAGSRDLNF 5429 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WECA_ECOLI P0AC78 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (2.7.8.-) (UDP-GlcNAc:undecaprenyl-phosphate GlcNAc-1-phosphate transferase) (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.93, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 15/32 (46%) Frame = -3 Query: 62 TFGIVDYYIPHASLYLACAGVLVFIGALDDRF 93 + GI+ +ASL + + V I A RF Sbjct: 1874 SIGIISNLFTNASLSESSRSICVGIPAASSRF 1779 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 14/27 (51%) Frame = +2 Query: 255 LMDMVAIMYRRLRKGMSPFSPDRQHIH 281 +M V I+Y++ KG+ P Q + Sbjct: 155 MMRQVLILYKKEGKGLFQ*RPMWQQVE 235 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WECB_ECOLI P27828 UDP-N-acetylglucosamine 2-epimerase (5.1.3.14) (UDP-GlcNAc-2-epimerase) (Bacteriophage N4 adsorption protein C) (376 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = -1 Query: 119 GLRTGDLYSPW 129 G GDL PW Sbjct: 6124 GCDYGDLLQPW 6092 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -1 Query: 52 IVPDYDLNIMQP 63 I+P D+N P Sbjct: 4705 IIPQNDINTFSP 4670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WECC_ECOLI P27829 UDP-N-acetyl-D-mannosamine dehydrogenase (1.1.1.n3) (UDP-ManNAc 6-dehydrogenase) (420 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WECF_ECOLI P56258 4-alpha-L-fucosyltransferase (2.4.1.-) (TDP-Fuc4NAc:lipid II Fuc4NAc transferase) (Fuc4NAc transferase) (359 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WECG_ECOLI P27836 Probable UDP-N-acetyl-D-mannosaminuronic acid transferase (UDP-ManNAcA transferase) (2.4.1.-) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.2, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -3 Query: 182 LVHPDALYMGVGGTYDV 198 LVH D L+ G Y+V Sbjct: 626 LVH*DRLHHRSLGVYNV 576 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 11/28 (39%) Frame = +2 Query: 120 VLAQTEAKLRNQWNVNIVGSQDGYFKPE 147 + + + QW VN+ FKP Sbjct: 1673 IWCWSSVTIHQQWMVNV-------FKPS 1735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WRBA_ECOLI P0A8G6 Flavoprotein wrbA (Trp repressor-binding protein) (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +1 Query: 59 PVATPQELADY 69 P+A EL DY Sbjct: 6010 PIAEQIELTDY 6042 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZA_ECOLI P0A930 Putative polysaccharide export protein wza (Precursor) (379 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.43, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 15/30 (50%) Frame = +2 Query: 322 MSDATSLVMATEFRLQPYDVVYVTTAPVSR 351 + +A V+ +FR Q +V T VSR Sbjct: 4223 VREAERAVVIEQFREQEGKIVTATVKKVSR 4312 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +2 Query: 249 VPRNDDLKVFVMGEVK 264 +PR ++ V GEVK Sbjct: 6089 MPRLKEIAVVAAGEVK 6136 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZB_ECOLI P0AAB2 Low molecular weight protein-tyrosine-phosphatase wzb (3.1.3.48) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.9, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 7/17 (41%) Frame = -3 Query: 62 GHCARQISRRLCRNYDL 78 GH + C+NY Sbjct: 5102 GHDHAALEASFCQNYQF 5052 Score = 15.0 bits (27), Expect = 9.8, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = -1 Query: 107 WDNEC 111 W NEC Sbjct: 6601 WSNEC 6587 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZC_ECOLI P76387 Tyrosine-protein kinase wzc (2.7.10.-) (720 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 13/18 (72%) Frame = +2 Query: 218 LTVTENGKDAGVLSLTYT 235 +TVT+ + G +++TY+ Sbjct: 1283 MTVTKRDRQQGNIAVTYS 1336 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZXC_ECOLI P77377 Lipopolysaccharide biosynthesis protein wzxC (492 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.4, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -1 Query: 426 LPTLVVSYALGIVL 439 LPTL+ Y IVL Sbjct: 6934 LPTLLAGYRAEIVL 6893 Score = 16.9 bits (32), Expect = 9.9, Method: Compositional matrix adjust. Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 1/26 (3%) Frame = -3 Query: 42 GLLTVSLVIIALAD-TLSDFGIANSI 66 GLL VS + ALA LS F ++++ Sbjct: 5825 GLLFVSAIFFALASFALSLFACSSAL 5748 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZXE_ECOLI P0AAA7 Protein wzxE (416 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.26, Method: Compositional matrix adjust. Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 4/48 (8%) Frame = -2 Query: 306 AASFTVWLLRDFAIWLLLSNKFTAMRDLFAWQL----VGDVLKVGAYV 349 +AS T + FA+W+++ +K T DL W + D +++G + Sbjct: 4236 SASRTFCTITCFAVWVVMRSKTT---DLI-WSSI*VGISDSVEIGVFC 4105 Score = 20.0 bits (40), Expect = 0.83, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +1 Query: 56 AGIFNGVTKYVAQYH 70 AG G+T+++ YH Sbjct: 6610 AGEAGGITQHIGAYH 6654 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -1 Query: 132 GNLLLALMKGFR 143 GNLL L+ G+R Sbjct: 6943 GNLLPTLLAGYR 6908 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZYE_ECOLI P27835 Putative ECA polymerase (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 28 0.004 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 28.1 bits (61), Expect = 0.004, Method: Compositional matrix adjust. Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 7/46 (15%) Frame = +2 Query: 228 MLAAAGVLGIVGMFWLAL-------KRYGMNVSGDEAFYTFLYLTR 266 +L + ++ I+ + WL L +RY VSGDEA+ L R Sbjct: 500 ILQKSVMIKIISVLWLMLLAACSTEQRYKRQVSGDEAYLNAPALKR 637 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -1 Query: 267 DTFSPWENLALLL 279 D PW + LLL Sbjct: 6109 DLLQPWHHFHLLL 6071 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZZB_ECOLI P76372 Chain length determinant protein (Polysaccharide antigen chain regulator) (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= WZZE_ECOLI P0AG00 Lipopolysaccharide biosynthesis protein wzzE (348 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 8/11 (72%) Frame = +2 Query: 285 NRAMLNTLNVG 295 NRAMLN L G Sbjct: 1085 NRAMLNKLIEG 1117 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= X19F_ECOLI P47737 X polypeptide (ORF 19) (P19 protein) (ORF169) (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = -3 Query: 70 QHFNELARYGIKPEH 84 HF+ + R +P H Sbjct: 1532 HHFDSMQRVAPQPAH 1488 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XAPA_ECOLI P45563 Xanthosine phosphorylase (2.4.2.-) (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 48 AISYEKLPGFPVSTVHGH 65 AISY + V+ +GH Sbjct: 1336 AISYSNVTLLSVTFSYGH 1283 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XAPB_ECOLI P45562 Xanthosine permease (Xanthosine transporter) (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.53, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 11/22 (50%) Frame = -1 Query: 15 YFIWGSWLVTLGSYMINTLHFT 36 YF++ + LGSY + F Sbjct: 4225 YFLYNNLFRCLGSYAVKNYRFN 4160 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 11/22 (50%) Frame = -3 Query: 370 DYFSVDGVKDWQTIWLVFAGYA 391 D+FS+D + D + V Y Sbjct: 3737 DHFSIDSLDDTLPLTTVLHCYT 3672 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 15/33 (45%) Frame = -2 Query: 74 LCHLVCAGVLFYAASVTDPDMMFWVMLVNAMAF 106 +CH V + +YA S + ++N AF Sbjct: 5391 ICHAVPSCYSYYALSPN--QQILRAAIINLPAF 5299 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XAPR_ECOLI P23841 HTH-type transcriptional regulator xapR (Xanthosine operon regulatory protein) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XDHA_ECOLI Q46799 Xanthine dehydrogenase molybdenum-binding subunit (1.17.1.4) (752 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -1 Query: 435 GVACFSY 441 GVAC+SY Sbjct: 2752 GVACYSY 2732 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XDHB_ECOLI Q46800 Xanthine dehydrogenase FAD-binding subunit (1.17.1.4) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 15/62 (24%) Frame = -1 Query: 138 HSPRGVRFV-------------PINGFHTGP-GKVSLEHDEILVAFHFPPQPK-EHAGSA 182 H R +RFV P P ++ L + +LV + QP H GS Sbjct: 6046 HGNRSIRFVRLWVQAIYLHFLLPFYALLQQPVSRLLLSYGALLVLQNVSVQPLLPHGGSC 5867 Query: 183 HF 184 HF Sbjct: 5866 HF 5861 Score = 16.9 bits (32), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 144 RFVPINGFH 152 +FVPI FH Sbjct: 5635 QFVPIYFFH 5609 Score = 16.2 bits (30), Expect = 8.8, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -3 Query: 93 LCAAATSIAGPQIRNVATY 111 LCA+ +SIA + Y Sbjct: 2468 LCASISSIAKEDCKQPQCY 2412 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XDHC_ECOLI Q46801 Xanthine dehydrogenase iron-sulfur-binding subunit (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +2 Query: 49 CGACTV 54 CG CT+ Sbjct: 5222 CGVCTL 5239 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XDHD_ECOLI Q46814 Probable hypoxanthine oxidase xdhD (1.-.-.-) (956 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 8.2, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 15/27 (55%) Frame = +2 Query: 427 VGMKQHKVHVIKERVGGGFGSKQDILL 453 VGM+ +V + +G G + DI+L Sbjct: 4625 VGMRGARVQAVSNELG---GERIDIVL 4696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XERC_ECOLI P0A8P6 Tyrosine recombinase xerC (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -2 Query: 103 APKAPRHLP 111 AP+ P H P Sbjct: 4641 APRIPTHAP 4615 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XERD_ECOLI P0A8P8 Tyrosine recombinase xerD (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 4/18 (22%), Positives = 10/18 (55%) Frame = -1 Query: 279 YTHVATERLRQLHQQHHP 296 +++ + ++ H QH P Sbjct: 6601 WSNECNQAMKSYHDQHDP 6548 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XGPT_ECOLI P0A9M5 Xanthine phosphoribosyltransferase (2.4.2.22) (Xanthine-guanine phosphoribosyltransferase) (XGPRT) (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect(2) = 2.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = +3 Query: 28 QWKGIIAVSRGGLV 41 +W+GII G ++ Sbjct: 3696 KWQGIIKAVDGEMI 3737 Score = 16.2 bits (30), Expect(2) = 2.2, Method: Compositional matrix adjust. Identities = 11/30 (36%), Positives = 12/30 (40%) Frame = +3 Query: 80 DGEGFIVIDDLVDTGGTAVAIREMYPKAHF 109 DGE IV D D IR+ HF Sbjct: 3723 DGEMIIVTVDGKDEVFALSNIRKANRAPHF 3812 Score = 16.2 bits (30), Expect = 4.4, Method: Compositional matrix adjust. Identities = 8/32 (25%), Positives = 15/32 (46%) Frame = +2 Query: 5 YIVTWDMLQIHARKLASRLMPSEQWKGIIAVS 36 Y + W L K+ + ++ +G IAV+ Sbjct: 1235 YAIVWQRLPPALAKIGMTVTKRDRQQGNIAVT 1330 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XNI_ECOLI P38506 Uncharacterized exonuclease xni (3.1.11.-) (281 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.072 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.072, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 16/25 (64%), Gaps = 1/25 (4%) Frame = +1 Query: 247 KLETHKEMAFLCRD-IARLQTDLHI 270 ++E H + FLC D I R+ T +++ Sbjct: 2452 EIEAHNKEHFLCGDPIGRIGTTMYV 2526 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 12/27 (44%) Frame = +2 Query: 149 HQATIVSTDKGYCQLLSPTLRIRDYFQ 175 HQ D YC+ ++R + Y Q Sbjct: 3710 HQGCRWRNDHRYCRWKR*SVRTKQYPQ 3790 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 10/17 (58%) Frame = -3 Query: 251 HKEMAFLCRDIARLQTD 267 HK+ + LC I+ + + Sbjct: 2486 HKKCSLLCASISSIAKE 2436 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 12/24 (50%) Frame = -3 Query: 53 SPCVETCQHALDQLIMHSQPTHAV 76 + C+ CQ L ++ + HAV Sbjct: 740 AECLTVCQRHLAVILAQYRKFHAV 669 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = -2 Query: 45 RRIHAVQGSPCVETC 59 R + + +PC +TC Sbjct: 738 RMSNCLPTAPCCDTC 694 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLA_ECOLI P00944 Xylose isomerase (5.3.1.5) (D-xylulose keto-isomerase) (440 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 14/45 (31%), Positives = 22/45 (48%) Frame = +1 Query: 354 YGHIGAMDTMALALKIAARMIEDGELDKRIAQRYSGWNSELGQQI 398 Y IGA LAL I +I + E+ K + G ++ LG ++ Sbjct: 2857 YLCIGAQRNFKLALMI*KNVIFNTEVVKLVDTLP*GGSARLGLRV 2991 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 9/22 (40%) Frame = -1 Query: 32 LVLGKRMEEHLRFAACYWHTFC 53 L + + F CY H FC Sbjct: 4840 LTIAPNRLCRITFFNCYVHRFC 4775 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLB_ECOLI P09099 Xylulose kinase (Xylulokinase) (2.7.1.17) (484 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 48 WWQATDRAMKALGDQH 63 W ++AMK+ DQH Sbjct: 6601 WSNECNQAMKSYHDQH 6554 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLE_ECOLI P0AGF4 D-xylose-proton symporter (D-xylose transporter) (491 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.36, Method: Compositional matrix adjust. Identities = 13/41 (31%), Positives = 16/41 (39%), Gaps = 17/41 (41%) Frame = +2 Query: 216 LLYTVPESPRWLM-----------------SRGKQEQAEGI 239 LLY P SP W+M +GKQE + I Sbjct: 6518 LLYAPPSSPSWVMLIMVRLHCLIAFVRPKLRQGKQEGSHSI 6640 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLF_ECOLI P37387 D-xylose-binding periplasmic protein (Precursor) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -3 Query: 259 QTMTVYKPITLL 270 Q + Y+P TLL Sbjct: 5249 QDLPAYRPRTLL 5214 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLG_ECOLI P37388 Xylose import ATP-binding protein xylG (3.6.3.17) (513 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.95 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.95, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 11/22 (50%) Frame = -1 Query: 301 TETIQCLFGVWPGQWEGKIYID 322 T + CLF VW + G Y D Sbjct: 6172 TRRVYCLFSVW*FYFPGCDYGD 6107 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%) Frame = +3 Query: 10 ITKTFGSVKAIDNVCLR 26 + KT+ V A++ C+R Sbjct: 4377 LVKTYALVTALEVFCMR 4427 Score = 17.3 bits (33), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 323 GKQVDIR 329 GKQ+DIR Sbjct: 719 GKQLDIR 739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLH_ECOLI P0AGI4 Xylose transport system permease protein xylH (393 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.60, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 15/35 (42%) Frame = -3 Query: 130 WVAYRKVPSFIVTLAGMLAFRGILIGITNGTTVSP 164 W+ PSFI+ L IL + TVSP Sbjct: 6392 WLIVAIPPSFIIVLMT*EPLTAILFASSATVTVSP 6288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLR_ECOLI P0ACI3 Xylose operon regulatory protein (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -1 Query: 198 ILQVCEHLHIPVPEK 212 +LQ H H+ +PE+ Sbjct: 6106 LLQPWHHFHLLLPER 6062 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= XYLS_ECOLI P31434 Alpha-xylosidase (3.2.1.-) (772 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= Y1142_ECOLI P75971 Putative uncharacterized protein b1142 (103 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.8, Method: Composition-based stats. Identities = 15/43 (34%), Positives = 19/43 (44%) Frame = -1 Query: 27 VQPSPGTGGTRHHNFMLCVVLAVPVFSLVLSGTALFTKQRRVS 69 VQP GG+ H V+ +FS + S A F QR S Sbjct: 5899 VQPLLPHGGSCH------FVVESSIFSFLQS--AYFLCQRFFS 5795 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= Y309_ECOLI P75688 Putative uncharacterized protein b0309 (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= Y3808_ECOLI P11291 Putative uncharacterized protein b3808 (CyaX) (O161) (161 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= Y4223_ECOLI P08339 Putative uncharacterized protein b4223 (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= Y4286_ECOLI Q47719 Putative uncharacterized protein b4286 (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.38, Method: Composition-based stats. Identities = 9/21 (42%), Positives = 10/21 (47%) Frame = -1 Query: 44 DHPAAVQVTMTLVNDTGFDPV 64 DH LV TGF+PV Sbjct: 3046 DHHPKASYLYELVPRTGFEPV 2984 Score = 17.7 bits (34), Expect = 1.1, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 2/49 (4%) Frame = +2 Query: 18 TRRPVLVDHNRL--PEGSRGRLAVAVAGDHPAAVQVTMTLVNDTGFDPV 64 +R +L++ R+ PE + + A PA+ ND DP+ Sbjct: 4469 SRPEMLIELFRIEVPEIDEELIEIKAAIRDPASRAKIAVKTNDKRIDPI 4615 Score = 16.9 bits (32), Expect = 2.3, Method: Composition-based stats. Identities = 7/25 (28%), Positives = 10/25 (40%) Frame = -3 Query: 22 VLVDHNRLPEGSRGRLAVAVAGDHP 46 V + H R P G V + + P Sbjct: 2219 VFLSHKRQPSGENSSPKVILFSNKP 2145 Score = 15.8 bits (29), Expect = 4.6, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 8/15 (53%), Gaps = 1/15 (6%) Frame = +1 Query: 73 WRQ-QPCTPSYCCDW 86 W Q CT S+ +W Sbjct: 4825 WAQWSKCTLSFSAEW 4869 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAA_ECOLI P0A8I3 UPF0246 protein yaaA (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = -1 Query: 41 LTPPQISTLMRISDKLAGINAA 62 +TP Q+S +R D GIN+ Sbjct: 3502 VTPSQLSI*IRSVDWRPGINST 3437 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 12/45 (26%), Positives = 18/45 (40%) Frame = +1 Query: 7 PAKTLDYQSPLTTTRYTLPELLDNSQQLIHEARKLTPPQISTLMR 51 PAK + + ++ D + I E +KLT Q S R Sbjct: 5743 PAKAEEQAKSESAKEANAKKIADTKSKPIVEKKKLTTQQQSDKTR 5877 Score = 17.3 bits (33), Expect = 3.0, Method: Compositional matrix adjust. Identities = 15/45 (33%), Positives = 18/45 (40%), Gaps = 6/45 (13%) Frame = -3 Query: 181 PKKLNAEIIKPVFLDEK------NGKFKIISFYAKKARGLMSRFI 219 P+K + I VFL K N K+I F K L S I Sbjct: 2252 PRKRSLSIFSNVFLSHKRQPSGENSSPKVILFSNKPNSSLKSTRI 2118 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAH_ECOLI P0AC98 Inner membrane protein yaaH (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAI_ECOLI P28696 UPF0412 protein yaaI (Precursor) (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.28, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 11/25 (44%) Frame = +2 Query: 94 TTDWININSDNDNKRCVSKITFSGH 118 TTDWI N R + F+G Sbjct: 917 TTDWIKWN------RADEDVPFAGR 973 Score = 17.7 bits (34), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -2 Query: 101 NSDNDNKRCVSKI 113 N+DN + RC S + Sbjct: 6846 NNDNGDFRCFSML 6808 Score = 17.3 bits (33), Expect = 1.6, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 3/29 (10%) Frame = +3 Query: 6 TISASLAISLMLCCTAQAND---HKLLGA 31 ISA LAI C + +D HK+ G+ Sbjct: 5328 AISAGLAIMRNNCSRKEQHDRCNHKVAGS 5414 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAJ_ECOLI P30143 Uncharacterized transporter yaaJ (476 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAU_ECOLI P31679 Putative metabolite transport protein yaaU (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.29, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -1 Query: 256 VIPMFAIYTFGPQIV 270 +IP I TF PQ+V Sbjct: 4705 IIPQNDINTFSPQLV 4661 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 8/37 (21%) Frame = -3 Query: 76 ISDKVGRRKMFLI--------DIIAIGVISVATMFVS 104 +SD +G+RK+ + + AIG+ S+ S Sbjct: 419 VSDVIGKRKVSAVINPSRLQAHLTAIGLASINNSLCS 309 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAW_ECOLI P75617 UPF0174 protein yaaW (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAX_ECOLI P75616 Uncharacterized protein yaaX (Precursor) (98 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAAY_ECOLI P75620 Uncharacterized protein yaaY (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YABI_ECOLI P30149 Inner membrane protein yabI (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = +1 Query: 225 SAIGVVALVVLIRHPLMPVYIDILR 249 A +V LVV +MP I+ ++ Sbjct: 6736 QATDIVVLVVAADDGVMPQTIEAIQ 6810 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +3 Query: 178 KWLLLATAV 186 KW++LAT V Sbjct: 1410 KWVILATVV 1436 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YABP_ECOLI P39220 Putative uncharacterized protein yabP (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +1 Query: 40 WETLRH 45 W+T+RH Sbjct: 718 WQTVRH 735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YABQ_ECOLI P39221 Uncharacterized protein yabQ (52 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YACC_ECOLI P0AA95 Uncharacterized protein yacC (Precursor) (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 5.4, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +3 Query: 95 PVAKKCK 101 PVA CK Sbjct: 1392 PVAISCK 1412 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YACF_ECOLI P36680 UPF0289 protein yacF (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.60, Method: Compositional matrix adjust. Identities = 9/38 (23%), Positives = 23/38 (60%) Frame = -1 Query: 6 LFEHPLNEKMRTWLRIEFLIQQLTVNLPIVDHAGALHF 43 L + P++ + ++ + ++Q ++V P++ H G+ HF Sbjct: 5968 LLQQPVSRLLLSYGAL-LVLQNVSVQ-PLLPHGGSCHF 5861 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 16/34 (47%) Frame = +2 Query: 30 VNLPIVDHAGALHFFRNVSELLDVFERGEVRTEL 63 +NL GAL FR E ++ ++ V EL Sbjct: 5555 INLRCNGKYGAL*MFRAPVEKVNRYKLKFVENEL 5656 Score = 16.9 bits (32), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 14/19 (73%) Frame = -2 Query: 154 VETWIASLNPLTQALTMVL 172 + +W+ + PLT ALT++L Sbjct: 2796 IFSWLTQIFPLT-ALTVLL 2743 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 11/24 (45%), Gaps = 1/24 (4%) Frame = -2 Query: 12 NEKMRTWLRIEFLI-QQLTVNLPI 34 N R W R FLI LT P+ Sbjct: 2835 NIAARFWRRAYFLIFSWLTQIFPL 2764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YACG_ECOLI P0A8H8 UPF0243 zinc-binding protein yacG (65 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.30 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.30, Method: Composition-based stats. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +1 Query: 18 WGEISPFRPFCSKRCQLID 36 WG SPF +K+ ID Sbjct: 6928 WGGDSPFVHVSAKKGTGID 6984 Score = 16.5 bits (31), Expect = 1.0, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 5/10 (50%) Frame = -1 Query: 23 PFRPFCSKRC 32 PFR RC Sbjct: 37 PFRAINHNRC 8 Score = 15.8 bits (29), Expect = 1.6, Method: Composition-based stats. Identities = 5/17 (29%), Positives = 9/17 (52%) Frame = +2 Query: 32 CQLIDLGEWAAEEKRIP 48 C + + WA +R+P Sbjct: 2582 CNKVKVRIWALHLERVP 2632 Score = 15.8 bits (29), Expect = 1.7, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -3 Query: 2 SETITVNCPTC 12 S+ + V CP C Sbjct: 3824 SKFLKVGCPVC 3792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YACH_ECOLI P36682 Uncharacterized protein yacH (617 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 10/25 (40%) Frame = +2 Query: 362 HNPNYRNGVPYHDQDMAKRFHQTDV 386 HNP P H K F + D+ Sbjct: 3107 HNPKVAGSNPAHATTSRKIFFKYDI 3181 Score = 18.1 bits (35), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -1 Query: 84 PVALYPD 90 PVAL+PD Sbjct: 6421 PVALFPD 6401 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YACL_ECOLI P0A8E5 UPF0231 protein yacL (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADC_ECOLI P31058 Uncharacterized fimbrial-like protein yadC (Precursor) (412 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.47, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -3 Query: 12 ALYSCCNTVSAYTSF 26 A CCNT+SA + Sbjct: 2600 APLPCCNTISAISPI 2556 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADD_ECOLI P31665 Uncharacterized protein yadD (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 66 SVQMQGN 72 SVQ QGN Sbjct: 983 SVQQQGN 1003 Score = 16.2 bits (30), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 12/16 (75%) Frame = +3 Query: 126 ATPYPLSMCWFDMFYS 141 +TP+ +++ F +F+S Sbjct: 2397 STPF*IALRLFAIFFS 2444 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADE_ECOLI P31666 Uncharacterized protein yadE (Precursor) (409 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADG_ECOLI P36879 Uncharacterized ABC transporter ATP-binding protein yadG (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADH_ECOLI P0AFN6 Inner membrane transport permease yadH (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = -1 Query: 237 IVAFYLICWSLIQ 249 I AF+L C LIQ Sbjct: 1555 ITAFFLFCIILIQ 1517 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADI_ECOLI P36881 Putative phosphotransferase enzyme IIA component yadI (2.7.1.-) (Putative PTS system EIIA component) (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 36 WRGLSSNMLSRMM 48 WR N LSR++ Sbjct: 4741 WRHSVKNELSRII 4703 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADK_ECOLI P37016 Uncharacterized protein yadK (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADL_ECOLI P37017 Uncharacterized protein yadL (Precursor) (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADM_ECOLI P37018 Uncharacterized protein yadM (Precursor) (189 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADN_ECOLI P37050 Uncharacterized fimbrial-like protein yadN (Precursor) (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 39 NTCETRVD 46 NTC R+D Sbjct: 4627 NTCPYRID 4604 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YADS_ECOLI P0AFP0 UPF0126 inner membrane protein yadS (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAEB_ECOLI P28634 UPF0066 protein yaeB (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -3 Query: 177 EKRYPQLTLFIR 188 E YP + LF+R Sbjct: 4379 EAAYPPVQLFLR 4344 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +1 Query: 81 GGNARMGV 88 GG+AR+G+ Sbjct: 2962 GGSARLGL 2985 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAEF_ECOLI P37056 Uncharacterized lipoprotein yaeF (Precursor) (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAEH_ECOLI P62768 UPF0325 protein yaeH (128 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = +1 Query: 100 ILDDLRHLESVVTNKIS 116 +L L+H V NK++ Sbjct: 5515 LLAHLKHEPGQVPNKLT 5565 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAEI_ECOLI P37049 Phosphodiesterase yaeI (3.1.4.-) (270 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.071 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.071, Method: Compositional matrix adjust. Identities = 24/97 (24%), Positives = 35/97 (36%) Frame = -2 Query: 20 GFGYMHYCEPGWFELIRHRLAFFKDNAAPFKILFLADLHYSRFVPLSLISDAIALGIEQK 79 G+G+ P F H FF + PF++ F H+S + + G+ Sbjct: 6018 GYGF----RPFTFIFCCHFTRFFSN---PFRVFFYLTAHFSFYRTFQFSRFCLTAGLVT- 5863 Query: 80 PDLILLGGDYVLFDMSLNFSAFSDVLSPLAECAPTFA 116 +LL + LF L F SD C TF Sbjct: 5862 ---LLLSRQFFLFYNRLTFCV-SDFFRVSFLCTFTFC 5764 Score = 19.6 bits (39), Expect = 0.65, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 14/33 (42%) Frame = +2 Query: 112 APTFACFGNHDRPVGTEKNHLIGETLKSAGITV 144 P F C G VGT+ N T KS G + Sbjct: 3332 GPFFLCLGGEFVHVGTKINRDNFSTGKSLGTQI 3430 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +1 Query: 125 VGTEKNHLIGETLKSAGI 142 + + NH I L++AGI Sbjct: 1750 INNKFNHFIMNRLEAAGI 1803 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAEJ_ECOLI P40711 Uncharacterized protein yaeJ (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = +2 Query: 126 SSVKAMRGKV 135 ++VKA+ GK+ Sbjct: 2747 NTVKAVSGKI 2776 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAEP_ECOLI P0A8K5 UPF0253 protein yaeP (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 0.91, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +2 Query: 10 KRYAEIASGDLGYV 23 +RY SGD Y+ Sbjct: 575 QRYKRQVSGDEAYL 616 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAEQ_ECOLI P0AA97 Uncharacterized protein yaeQ (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAER_ECOLI P52096 Uncharacterized protein yaeR (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAET_ECOLI P0A940 Outer membrane protein assembly factor yaeT (Omp85) (Precursor) (810 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.5, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = -1 Query: 624 DHKWVVLGRTRWGY 637 + +W++L R WG+ Sbjct: 94 NFQWLLLTR*YWGF 53 Score = 18.9 bits (37), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -3 Query: 30 HFEGLQRVA 38 HF+ +QRVA Sbjct: 1529 HFDSMQRVA 1503 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFC_ECOLI P30864 Uncharacterized HTH-type transcriptional regulator yafC (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 103 VVLHFLMP 110 + LHFL+P Sbjct: 6001 IYLHFLLP 5978 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFD_ECOLI P0A8U2 UPF0294 protein yafD (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +3 Query: 248 RASDHNPLLVEFSPGK 263 +A H + VEF PG+ Sbjct: 3411 KALGHKLVGVEFIPGR 3458 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 3/36 (8%) Frame = +2 Query: 18 RILPPGSFASIGQALPPGEPLSTE---ERIRILVWN 50 RI P G A +G + +S E ERI I++W+ Sbjct: 4601 RIDPIG--ACVGMRGARVQAVSNELGGERIDIVLWD 4702 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 211 LRQVRFTD 218 LRQ+RFT Sbjct: 2055 LRQMRFTS 2032 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFE_ECOLI P30866 Uncharacterized protein yafE (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.3, Method: Compositional matrix adjust. Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 7/49 (14%) Frame = +2 Query: 153 EFSSWVARMRTPEALVDAIRIYQQSASTEVR-------TYFALQNDGFF 194 EFSS PE+ + I + + E+R T AL+ + F Sbjct: 5000 EFSSLEELAYVPESELPEIDSFDKKRLQELRDRAQNVLTTLALKKEESF 5146 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFF_ECOLI Q2EEP9 Putative uncharacterized protein yafF (62 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.5 bits (23), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +2 Query: 26 NILTNEKV 33 N+L NEK Sbjct: 5903 NVL*NEKC 5926 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFJ_ECOLI Q47147 Putative glutamine amidotransferase yafJ (2.4.2.-) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.041 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.041, Method: Compositional matrix adjust. Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 10/64 (15%) Frame = +1 Query: 25 RGGGTGPHKDGWGITFYEGK-------GCRTFKDP---QPSFNSPIAKLVQDYPIKSCSV 74 RG T K G ++ + G ++ + P Q SFN P+A + +D I Sbjct: 6124 RGSKTTKQKKGNKLSESKADREEARAVGRKSKRKPSTLQQSFNKPVAVVNRDVIIGETVT 6303 Query: 75 VAHI 78 VA + Sbjct: 6304 VAEL 6315 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 56 FNSPIAKLVQDYP 68 FN+ + KLV P Sbjct: 2920 FNTEVVKLVDTLP 2958 Score = 16.5 bits (31), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +1 Query: 120 GNFRPVGETDSEKAFC 135 G+F P +SE ++C Sbjct: 4168 GSF*PHNYPNSETSYC 4215 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFK_ECOLI P0AA99 Uncharacterized protein yafK (Precursor) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFL_ECOLI Q47151 Uncharacterized lipoprotein yafL (Precursor) (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.23, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 12/26 (46%) Frame = -1 Query: 19 LPFSSFASATTSHISFSYAARQRMQN 44 LPF + S + SY A +QN Sbjct: 5983 LPFYALLQQPVSRLLLSYGALLVLQN 5906 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = -1 Query: 143 KGFDCSGLVFYAYNKILEAKLPR 165 KGF + + N + KLPR Sbjct: 3892 KGFLIRNGFYNSQNLFVHPKLPR 3824 Score = 15.8 bits (29), Expect = 8.8, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 182 NDLRRGDLLFF 192 ND R +LLFF Sbjct: 4022 NDGRSRNLLFF 3990 Score = 15.8 bits (29), Expect = 9.6, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 5/5 (100%) Frame = -1 Query: 133 PYVWG 137 P+VWG Sbjct: 1816 PFVWG 1802 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFM_ECOLI Q47152 Uncharacterized protein yafM (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFN_ECOLI Q47156 Uncharacterized protein yafN (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 7.8, Method: Compositional matrix adjust. Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 19/91 (20%) Frame = +1 Query: 8 KSVNITELRKNPAKYFIDQPVAVLSNN----------------RPAG---YLLSASAFEA 48 KSV I E+R+ + +I+ P A L+N +PA S SA EA Sbjct: 5620 KSVQI-EIRRK--RTYINTPNAELANTEKAKTEQAKQVEQVEKKPAKAEEQAKSESAKEA 5790 Query: 49 LMDMLAEQEEKKPIKARFRPSAARLEEITRR 79 +A+ + K PI + + + + + TRR Sbjct: 5791 NAKKIADTKSK-PIVEKKKLTTQQQSDKTRR 5880 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFO_ECOLI Q47157 Uncharacterized protein yafO (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.2, Method: Composition-based stats. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +3 Query: 3 VFKTKLIRLQLTA 15 + KTKL R LTA Sbjct: 4146 ILKTKLNR*FLTA 4184 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFP_ECOLI Q47158 Uncharacterized N-acetyltransferase yafP (2.3.1.-) (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -3 Query: 6 IRNYQPGDFQQLCAIFIR 23 ++NY Q LC+ F+R Sbjct: 4817 VQNYL---LQLLCSSFLR 4773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFQ_ECOLI Q47149 Uncharacterized protein yafQ (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.63, Method: Composition-based stats. Identities = 5/16 (31%), Positives = 10/16 (62%) Frame = +1 Query: 36 LINNTLPLPAVYKDHP 51 ++ + LP+P + HP Sbjct: 3550 MLKSRLPVPTT*RSHP 3597 Score = 15.0 bits (27), Expect = 4.7, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 37 INNTLPLPAV 46 +NN + PAV Sbjct: 5852 LNNKVTRPAV 5881 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFS_ECOLI P75672 Uncharacterized protein yafS (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 4/51 (7%) Frame = +1 Query: 192 HIPALG----CLQLIVARKRTIPLTLNPMKQSKNKPRIRQAVGATRQCRKP 238 ++P+ G +Q+ + RKRT T N + K + QA + +KP Sbjct: 5593 NVPSSGGKSKSVQIEIRRKRTYINTPNAELANTEKAKTEQAKQVEQVEKKP 5745 Score = 16.9 bits (32), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 158 RQLDWL 163 RQLDWL Sbjct: 349 RQLDWL 332 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFT_ECOLI P77339 Uncharacterized lipoprotein yafT (Precursor) (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -2 Query: 14 SLLAGCASESSIDE 27 SLL CA+ S I Sbjct: 4095 SLLISCAASSVISR 4054 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 1/77 (1%) Frame = +1 Query: 46 QLTDKDLFGNETTLAVSEEDIQAALDGDEFRVPLNSPVILVQSGNRAPETIM-QEEMRKY 104 +LTD + ++ A +E+ A ++GD S + GN+ E+ +EE R Sbjct: 6028 ELTDYHVTTSQHARAAEDEN-DAKVEGDRRSRSRGSKTTKQKKGNKLSESKADREEARAV 6204 Query: 105 YTVSTFSGIPDRQKPLT 121 G ++KP T Sbjct: 6205 -------GRKSKRKPST 6234 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFU_ECOLI P77354 Putative inner membrane protein yafU (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.7, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 63 VLNEIDAQCHL 73 VLN I+ C+L Sbjct: 2405 VLNSIEVVCNL 2437 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFV_ECOLI Q47679 UPF0012 hydrolase yafV (3.5.-.-) (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 10/22 (45%) Frame = -1 Query: 95 LVEPGGTVHFYDKRHLFRMADE 116 L+ GG+ HF + +F Sbjct: 5890 LLPHGGSCHFVVESSIFSFLQS 5825 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = -1 Query: 111 FRMADEHLHYKAG 123 F+M D+H++ G Sbjct: 4963 FKMFDKHINRCTG 4925 Score = 16.2 bits (30), Expect = 7.9, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 2/22 (9%) Frame = +3 Query: 64 NWMTAKAQ--QCNALIAGSVAL 83 N + K Q +CN +AGS L Sbjct: 5358 NNCSRKEQHDRCNHKVAGSRDL 5423 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFW_ECOLI Q47684 Uncharacterized protein yafW (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.35 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.35, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 8/17 (47%) Frame = +2 Query: 40 FSDIECRKLDETFPHFI 56 S + C+K E PH Sbjct: 6902 LSTVSCQKSGEEIPHLF 6952 Score = 14.2 bits (25), Expect = 8.8, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 7 GLQREITLRLGARL 20 GLQR RLG+ L Sbjct: 971 GLQRGHLHRLGSIL 930 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFX_ECOLI P75676 Uncharacterized protein yafX (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 8/17 (47%) Frame = +1 Query: 47 EPHIFAWMDRFCEGYSG 63 P I AW R+C + Sbjct: 658 NPAITAWNLRYCASITA 708 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 11/51 (21%), Positives = 18/51 (35%) Frame = +2 Query: 94 LNGNDAQMSAEAAGIAVCLIAYSHHACRTECDAMTAHYYRLREYAMQHPEA 144 L G Q + + +A H CR D + R Q+P++ Sbjct: 3641 LFGGKNQFNVTYSNAKPS*VARYHQGCRWRNDHRYCRWKR*SVRTKQYPQS 3793 Score = 15.4 bits (28), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = +1 Query: 66 WSFYTLSNGGAFMSPEPDNDE 86 WS TLS ++ D+D+ Sbjct: 4834 WSKCTLSFSAEWLGT*CDDDQ 4896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFY_ECOLI P77365 Uncharacterized lipoprotein yafY (Precursor) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.5, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +1 Query: 75 SPDGC 79 SPDGC Sbjct: 2185 SPDGC 2199 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAFZ_ECOLI P77206 UPF0380 protein yafZ (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.72, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = -2 Query: 194 EDHQPVTESQILSPRRWQDES 214 E H PV ++SP D S Sbjct: 6684 EGHHPVFGFNVISPDMLCDPS 6622 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = +2 Query: 196 HQPVTESQILSPRRWQD 212 H PV I P+RW D Sbjct: 5 HAPVV---IYCPKRW*D 46 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +2 Query: 219 TTYQRIQENLIKGGL 233 TTYQRI+ +K L Sbjct: 2327 TTYQRIKRFKVKLRL 2371 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGA_ECOLI P37007 Uncharacterized protein yagA (384 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.15 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.15, Method: Compositional matrix adjust. Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 3/48 (6%) Frame = -2 Query: 63 PRIPHHSP---NRSSDDITALLRMAHDRHERWGARKIKRWLEDQGHTM 107 PRIP H+P R S +TA+L A D R A G +M Sbjct: 4638 PRIPTHAPIGSIRLSLVLTAIL--ARDAGSRIAALISINSSSISGTSM 4501 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -3 Query: 70 PNRSSDDITALLRMAHD 86 PNR + + LRM H Sbjct: 1922 PNRFTSEPAVRLRMTHS 1872 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 12/20 (60%) Frame = -1 Query: 10 RDTMSLRTEFVLFASQDGAN 29 RDT L +FASQ G+N Sbjct: 1633 RDTTRL-----IFASQYGSN 1589 Score = 16.9 bits (32), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 14/23 (60%), Gaps = 4/23 (17%) Frame = +1 Query: 117 MARHGLLP----GASPGIPATGR 135 +++HG+LP G SP + + + Sbjct: 6898 LSQHGILPEEWGGDSPFVHVSAK 6966 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGB_ECOLI P37008 Putative uncharacterized protein yagB (116 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 8/17 (47%) Frame = -1 Query: 98 YVYIAILNRHGFNRHLR 114 +V N FN+H R Sbjct: 4525 FVNFWYFNAEKFNQHFR 4475 Score = 14.6 bits (26), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -2 Query: 17 PCFGARLV 24 PC +RLV Sbjct: 1314 PCCRSRLV 1291 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGE_ECOLI P75682 Uncharacterized protein yagE (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 43 8e-08 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 43.1 bits (100), Expect = 8e-08, Method: Compositional matrix adjust. Identities = 35/106 (33%), Positives = 51/106 (48%) Frame = +1 Query: 148 PALTGQDLTPALVKTLADSRSNIIGIKDTIDSVAHLRSMIHTVKGAHPHFTVLCGYDDHL 207 P+ TG DL P V LA NIIG+K+ ++ L SMI G +F +L G D Sbjct: 1 PSRTGCDLLPETVVRLAQI-PNIIGLKEATGNLERL-SMIKPSVG--DNFILLSGDDATG 168 Query: 208 FNTLLLGGDGAISASGNFAPQVSVNLLKAWRDGDVAKAAGYHQTLL 253 F+ + GG G IS + N A L + +G +A ++ L+ Sbjct: 169 FDFIQKGGQGIISVTANVAAGGMTELCQRVAEGKFTEAGRLNERLM 306 Score = 16.2 bits (30), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 284 VLPPASP 290 V+PPASP Sbjct: 6632 VIPPASP 6612 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGF_ECOLI P77596 Uncharacterized protein yagF (4.-.-.-) (655 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGG_ECOLI P75683 Uncharacterized symporter yagG (460 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +3 Query: 268 LLYGSLATMFGSLCSSR 284 LLY FG++C R Sbjct: 1218 LLYEHPTPSFGNVCRLR 1268 Score = 16.9 bits (32), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -3 Query: 273 LATMFGSLCSSRL 285 L ++FG LC +L Sbjct: 4208 LVSLFG*LCGQKL 4170 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGH_ECOLI P77713 Putative beta-xylosidase (3.2.1.37) (1,4-beta-D-xylan xylohydrolase) (Xylan 1,4-beta-xylosidase) (536 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.11, Method: Compositional matrix adjust. Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 14/71 (19%) Frame = +1 Query: 60 MLDMKGNPDSGGIWAPCLSYADGKFW--------------LLYTDVKIVDSPWKNGRNFL 105 ++ + N +GG+ C A+GKF L+ + + W R L Sbjct: 199 IISVTANVAAGGMTELCQRVAEGKFTEAGRLNERLMPLHKELFIEANPIAVKWACKRLGL 378 Query: 106 VTAPSIEGPWS 116 +TA ++ P + Sbjct: 379 ITAETLRLPMT 411 Score = 18.1 bits (35), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = +1 Query: 108 APSIEGPWSEPI 119 A EG W EPI Sbjct: 5980 AAENEGKWPEPI 6015 Score = 16.9 bits (32), Expect = 9.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +3 Query: 106 VTAPSIEGPWS 116 ++ PS+ G WS Sbjct: 4002 ISRPSVVGKWS 4034 Score = 16.9 bits (32), Expect = 9.7, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -1 Query: 468 VDTLVYRYSYSFDGETWHT 486 +DTLV ++ F W T Sbjct: 4609 IDTLVVSFNCDFST*RWVT 4553 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGI_ECOLI P77300 Uncharacterized HTH-type transcriptional regulator yagI (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 10/11 (90%) Frame = +3 Query: 1 MPIIQSVERAL 11 +P+ +SVERAL Sbjct: 4290 LPLKKSVERAL 4322 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGJ_ECOLI P77169 Uncharacterized protein yagJ (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.49, Method: Compositional matrix adjust. Identities = 39/177 (22%), Positives = 66/177 (37%), Gaps = 14/177 (7%) Frame = +1 Query: 71 KFEMTRVREGEKEADLPVWKHHLLCDESGNYPALL--------------NHWETKVFEIE 116 K E + V + EKE L KH E G P L + ++K +IE Sbjct: 5473 KSETSSVTQQEKEILLAHLKH-----EPGQVPNKLTLQRKIRSTLNVPSSGGKSKSVQIE 5637 Query: 117 TKREGFAFWYRNPQYTGQSSLGIAYVEAEQYKIVRPDFLFFAEQDGKMVVDLVDPHSLHL 176 +R+ + P ++ +A+Q + V EQ + + Sbjct: 5638 IRRKR--TYINTPNAELANTEKAKTEQAKQVEQVEKKPAKAEEQAKSESAKEANAKKIAD 5811 Query: 177 ADALPKLEGLALYAEHHSDAYRRIESVAEVKGKLRVLDLKRQDVQDAVATAENAETL 233 + P +E L + SD RR AE+K + +++R+ +DA AE A + Sbjct: 5812 TKSKPIVEKKKLTTQQQSDKTRREAEAAELKRSVE-REVRRKIEEDAKRVAEEARKM 5979 Score = 19.2 bits (38), Expect = 0.93, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = -1 Query: 88 VWKHHLLCDESGNYPALL 105 + H L C ES YP+ L Sbjct: 2275 LLSHRLNCHESDLYPSFL 2222 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -1 Query: 122 FAFWY 126 FAFWY Sbjct: 5044 FAFWY 5030 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGK_ECOLI P77657 Uncharacterized protein yagK (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 12/21 (57%) Frame = -1 Query: 24 CYLTNRYPRLIAVRVDLHYPK 44 +LT+ YP + R H+P+ Sbjct: 2230 SFLTSFYPTSDSHRGKTHHPR 2168 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 12/18 (66%) Frame = -1 Query: 139 AWYSALRLERDDHPGLVH 156 ++ S RLE DHP L++ Sbjct: 1750 SFLSDRRLEYVDHPLLMY 1697 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 9/21 (42%) Frame = -1 Query: 158 PENCKYVLDTNSTDFQQNYQA 178 P C Y +DT F ++ Sbjct: 4630 PNTCPYRIDTLVVSFNCDFST 4568 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGL_ECOLI P77607 Uncharacterized protein yagL (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 12/28 (42%) Frame = -3 Query: 120 GRTVEDLQNILFFCLQKEMFIYSYHPAS 147 G + NI F C E+ + PAS Sbjct: 5540 GSCFKCASNISFSC*VTELVSDFFKPAS 5457 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 219 LSTVKRHWNNGIIG 232 L + R W++ IIG Sbjct: 6810 LDGLDRLWHDPIIG 6769 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 11/14 (78%) Frame = -1 Query: 35 IIYDTGVHQMRSFF 48 II+D+ + ++ +FF Sbjct: 1582 IIFDSRLKKITAFF 1541 Score = 16.2 bits (30), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 75 ILPEHVV 81 +LPEH+V Sbjct: 6745 LLPEHLV 6725 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGM_ECOLI P71296 Uncharacterized protein yagM (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -2 Query: 109 KTEVTLEEYCSL 120 KTE L + CSL Sbjct: 2409 KTEWILTKACSL 2374 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGN_ECOLI P71297 Uncharacterized protein yagN (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.8, Method: Composition-based stats. Identities = 12/41 (29%), Positives = 17/41 (41%) Frame = -1 Query: 44 LKGTYSALRKSVACAKLKILHLKQRMQNATNFLARLMSCKN 84 +K +ALR + L H+K + FLA L N Sbjct: 2548 VKKILAALRT*LYLFSLWGHHIKNALYYVPLFLASLKKIAN 2426 Score = 15.0 bits (27), Expect = 9.0, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 18 ARWCINSSKTTQ 29 A W + SKTT Sbjct: 4200 AVWVVMRSKTTD 4165 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGP_ECOLI P75684 Uncharacterized protein yagP (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGQ_ECOLI P77183 Uncharacterized protein yagQ (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.33, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = -1 Query: 209 FPASASAQIDTDTAVILLCH 228 FP++ + I TA+++ CH Sbjct: 3757 FPSTVTMIISPSTALMIPCH 3698 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 15/22 (68%) Frame = +2 Query: 117 ITLTLHKLRSAQPLLAVLNRLE 138 + L LH+L++ + +VLN +E Sbjct: 2357 VKLRLHRLQAFVSIHSVLNSIE 2422 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -2 Query: 16 EQAFLTDDHRTILRFAV 32 EQA H+T++ F + Sbjct: 567 EQAANNISHKTLIIFII 517 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGR_ECOLI P77489 Putative xanthine dehydrogenase yagR molybdenum-binding subunit (1.17.1.4) (732 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.77 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.77, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 17/35 (48%) Frame = +3 Query: 650 YFVNHDMAGYEVPVHADIPKQEVIFLDDTDPISSP 684 Y N D G V + AD+ Q LD +PI+ P Sbjct: 3477 YIDNCD--GVTVDMCADVSYQVSAVLDVEEPITCP 3575 Score = 18.9 bits (37), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -2 Query: 390 ADPTRCFSRRQLIECLRT 407 ++ RCF L++C T Sbjct: 6426 SNQLRCFLINNLVDCCHT 6373 Score = 18.1 bits (35), Expect = 6.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 105 IEHYHQAIALV 115 IEHYH +A + Sbjct: 2977 IEHYHLKVACL 2945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGS_ECOLI P77324 Putative xanthine dehydrogenase yagS FAD-binding subunit (1.17.1.4) (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGT_ECOLI P77165 Putative xanthine dehydrogenase yagT iron-sulfur-binding subunit (Precursor) (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +1 Query: 144 HPMQAAFIKHD 154 HP+ F+K+D Sbjct: 1948 HPLFELFLKND 1980 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -1 Query: 19 HDLSLTRR 26 HDL LTRR Sbjct: 6187 HDLLLTRR 6164 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = +1 Query: 3 NQGEYPE 9 N+G++PE Sbjct: 5989 NEGKWPE 6009 Score = 16.2 bits (30), Expect = 6.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -1 Query: 151 IKHDGFQCGYCTSG 164 + +DG C Y SG Sbjct: 1252 LPNDGVGCSYNKSG 1211 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = -2 Query: 155 GFQCGYC 161 G CGYC Sbjct: 3798 GLLCGYC 3778 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +2 Query: 104 CGACTV 109 CG CT+ Sbjct: 5222 CGVCTL 5239 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGU_ECOLI P0AAA1 Inner membrane protein yagU (204 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 10/12 (83%) Frame = +2 Query: 117 YCVVAEVFPKIK 128 +C++A V PK++ Sbjct: 6575 HCLIAFVRPKLR 6610 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGV_ECOLI P77263 Uncharacterized protein yagV (Precursor) (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGW_ECOLI P77694 Uncharacterized protein yagW (547 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.19, Method: Compositional matrix adjust. Identities = 14/36 (38%), Positives = 17/36 (47%) Frame = -2 Query: 14 LIWPVTALRAAVSKTTWADAPAREFVFVENNSDDNF 49 L W T LR SKT W FV+NN + +F Sbjct: 6927 LFWQDTVLR*FCSKTLW--ISVWFIYFVDNNDNGDF 6826 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAGX_ECOLI P77802 Uncharacterized protein yagX (Precursor) (841 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.3, Method: Compositional matrix adjust. Identities = 11/18 (61%), Positives = 13/18 (72%) Frame = +1 Query: 266 GLSWGNQASSTIFDSSQS 283 G S+G ASST+F SS S Sbjct: 2608 GASFGAGASSTLFGSSGS 2661 Score = 20.0 bits (40), Expect = 1.8, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = -3 Query: 815 AVWVGDVVCSGLSSWAAVTQT 835 A W+ +VC S AA T+T Sbjct: 6815 ACWMASIVCGMTPSSAATTKT 6753 Score = 19.2 bits (38), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -2 Query: 500 FSISYNDDRRYNSHY 514 F +ND R +N H+ Sbjct: 6366 FHHCFNDLRAFNCHF 6322 Score = 18.1 bits (35), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = -2 Query: 349 NKLFSRGR 356 +K+FSRGR Sbjct: 3912 SKIFSRGR 3889 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHA_ECOLI P21514 Cyclic di-GMP phosphodiesterase yahA (3.1.4.-) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +3 Query: 120 HEFKPW 125 H+F PW Sbjct: 741 HQFNPW 758 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHB_ECOLI P77700 Uncharacterized HTH-type transcriptional regulator yahB (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.10 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.10, Method: Compositional matrix adjust. Identities = 13/46 (28%), Positives = 25/46 (54%) Frame = +2 Query: 165 TEIGAIRWAFAIAPDHPLAFVPEPIAESQLRLYPNIMVEDTAHTIN 210 E+G R + D+P FV +A +++ +I+V++ A T+N Sbjct: 4661 NELGGERIDIVLWDDNPAQFVLNAMAPAEV---ASIVVDEDAKTMN 4789 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 186 PEPIAE 191 PEPIAE Sbjct: 6004 PEPIAE 6021 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHC_ECOLI P77219 Uncharacterized protein yahC (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.49, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 14/23 (60%) Frame = +3 Query: 7 TGVTVGICAGLWQLVSSHVGLSQ 29 GVTV +CA + VS+ + + + Sbjct: 3492 DGVTVDMCADVSYQVSAVLDVEE 3560 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHD_ECOLI P77736 Putative ankyrin repeat protein yahD (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 11/19 (57%), Positives = 13/19 (68%) Frame = -1 Query: 78 ISCLNDDLTLLRIILPAKP 96 +SC + L LLRII AKP Sbjct: 5389 LSCCSFLLQLLRII--AKP 5339 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHE_ECOLI P77297 Uncharacterized protein yahE (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 16/59 (27%), Positives = 21/59 (35%) Frame = -2 Query: 50 NSCRLALTHFDDLFRHGDKVQFDDQGITVGQHLHIEMSRCRRWLSPTLQMTAVNFHLIA 108 N R HF F +GD+ D+ + L IE WLS + F I Sbjct: 6351 NDLRAFNCHFIR*FSNGDRFTNDNVAVDYSNWL-IETLL*SAWLSFAFTANSPRFFTIC 6178 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHF_ECOLI P77187 Uncharacterized protein yahF (515 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.4, Method: Compositional matrix adjust. Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 4/21 (19%) Frame = +1 Query: 143 FSDNVSVED----ELALKQLA 159 FSDNVS E+AL Q A Sbjct: 2320 FSDNVSANKKI*GEIALAQTA 2382 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHG_ECOLI P77221 Uncharacterized protein yahG (472 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -1 Query: 327 GQWFTGPAQQVIGPMFA 343 GQ+ G Q++ P+F Sbjct: 5116 GQYILGTITQLLKPLFV 5066 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -2 Query: 430 LPVINTAIAHKDAG 443 L ++ TAI +DAG Sbjct: 4599 LSLVLTAILARDAG 4558 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHH_ECOLI Q2EEQ3 Putative uncharacterized protein yahH (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHJ_ECOLI P77554 Uncharacterized protein yahJ (Precursor) (460 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +1 Query: 416 VWPKAQDDASFVLVD 430 V K DDA +LVD Sbjct: 2086 VLSKLFDDAGLILVD 2130 Score = 18.1 bits (35), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = +1 Query: 320 VDELANRMVVQQISIASTV 338 V ELAN+M V+ + T+ Sbjct: 6304 VAELANKMAVKGSQVIKTM 6360 Score = 17.3 bits (33), Expect = 7.0, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -1 Query: 30 LAHAAVAGTLNCEANN 45 LAH ++ LNC ++ Sbjct: 2287 LAHRLLSHRLNCHESD 2240 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHK_ECOLI P75691 Uncharacterized zinc-type alcohol dehydrogenase-like protein yahK (1.-.-.-) (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/19 (26%), Positives = 12/19 (63%) Frame = -3 Query: 274 HKSPEVFNLIMKRRAIAGS 292 H+S V+N+++ + + S Sbjct: 602 HRSLGVYNVVLSNKRLTTS 546 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHL_ECOLI P77393 Uncharacterized protein yahL (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.46, Method: Compositional matrix adjust. Identities = 11/44 (25%), Positives = 22/44 (50%), Gaps = 1/44 (2%) Frame = +2 Query: 92 NDFPG-FYDWMDYPDHPVKFVFHILENQKGTVWVYDQDDAFLDI 134 N+ G D + + D+P +FV + + + V D+D ++I Sbjct: 4661 NELGGERIDIVLWDDNPAQFVLNAMAPAEVASIVVDEDAKTMNI 4792 Score = 19.6 bits (39), Expect = 0.65, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 16/28 (57%) Frame = -2 Query: 150 VQFIDSVRTDCKCILLEYHMPLLRIFPK 177 ++ ++++ C CI+ E ++RIF Sbjct: 1737 IEGLNTLTIHC*CIVTELQHQIIRIFSS 1654 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 205 LAHGLLLHLKNIYPVF 220 L+H L H ++YP F Sbjct: 2272 LSHRLNCHESDLYPSF 2225 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 12/21 (57%) Frame = -1 Query: 79 WSDDNALTINVQFNDFPGFYD 99 + D +++ + V F+D YD Sbjct: 6499 YRDHSSVLLRVHFHDAR*LYD 6437 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -1 Query: 6 APHNNLMPY 14 +PH N PY Sbjct: 4639 SPHPNTCPY 4613 Score = 16.2 bits (30), Expect = 7.9, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 14/26 (53%) Frame = -2 Query: 15 TQQSILNTVKNNQLPEDIKSSLVSCV 40 TQ + + +NQL + ++LV C Sbjct: 6456 TQDNFMTHFFSNQLRCFLINNLVDCC 6379 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHM_ECOLI P75692 Uncharacterized protein yahM (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 7.2, Method: Composition-based stats. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = -1 Query: 13 IPLLSSLQSGTLPLFGY 29 +P+L L++ ++GY Sbjct: 1849 LPMLRCLKAVVPFVWGY 1799 Score = 13.9 bits (24), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -2 Query: 63 ALRGLSSPM 71 ALR SSP+ Sbjct: 621 ALR*ASSPL 595 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHN_ECOLI P75693 Uncharacterized membrane protein yahN (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect(2) = 7.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 111 PQMSTLQQPIS 121 P + LQQP+S Sbjct: 5980 PFYALLQQPVS 5948 Score = 15.0 bits (27), Expect(2) = 7.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 131 GLITDLSNPQTVLFF 145 GL+T L + Q LF+ Sbjct: 5874 GLVTLLLSRQFFLFY 5830 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAHO_ECOLI P75694 Uncharacterized protein yahO (Precursor) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIA_ECOLI P0AAN5 Uncharacterized protein yaiA (63 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIE_ECOLI P0C037 UPF0345 protein yaiE (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAII_ECOLI P0A8D3 UPF0178 protein yaiI (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIL_ECOLI P51024 Uncharacterized protein yaiL (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.095 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.095, Method: Compositional matrix adjust. Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 6/57 (10%) Frame = +2 Query: 119 IARLLVDNNSEGE--YAIIPASVADK---IAQR-DASSIVLHSALSAEEQDEDDPYA 169 I++LL+DNN + + ++ I + ++ IA R DA+ + + DED P+A Sbjct: 797 ISKLLLDNNRQNDTLWSQITTVMQNESLPIADRQDANQTLTTDWIKWNRADEDVPFA 967 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 5/40 (12%) Frame = -2 Query: 83 TIANGDIGFNFTDGNLIKKIFVD-----KLTQAQLINGRL 117 T +N IGF T K IF+ + QA I G+L Sbjct: 2298 TFSNLLIGFYHTA*IATKAIFIHLF*RLFIPQATAIGGKL 2179 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIO_ECOLI Q47534 Uncharacterized protein yaiO (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 13/41 (31%), Positives = 18/41 (43%) Frame = +2 Query: 82 WYKWNNWLTTRTGIAFADNTPVFARQDFRQDINLALLPKTL 122 W KWN + FA + +Q Q LAL+ K+L Sbjct: 926 WIKWNR---ADEDVPFAGRYQISVQQQGNQ---LALVVKSL 1030 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -2 Query: 66 DYETEHFNATRG 77 D E FN+T+G Sbjct: 786 DSIREPFNSTKG 751 Score = 16.2 bits (30), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 9/23 (39%) Frame = -1 Query: 185 GYTQLWLSRGTGAYTYDWTPETR 207 Y Q W+ A + W TR Sbjct: 136 NYHQRWVLSC*AALNFQWLLLTR 68 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIP_ECOLI Q47536 Uncharacterized protein yaiP (398 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIS_ECOLI P71311 Uncharacterized protein yaiS (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = -2 Query: 155 STWLSFMPQVFESVKEEYFTV 175 S WLSF F + +FT+ Sbjct: 6234 SAWLSF---AFTANSPRFFTI 6181 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIT_ECOLI P77199 Putative uncharacterized protein yaiT (Precursor) (968 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIV_ECOLI P0AAP5 Uncharacterized protein yaiV (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +1 Query: 63 LEGVISLRREENVLIGITQAPY 84 L GVI + IG+ AP+ Sbjct: 2257 LGGVIEAYEQVAKRIGVPLAPF 2322 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIW_ECOLI P77562 Uncharacterized protein yaiW (364 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +3 Query: 261 DGDLIRY 267 DGDL+RY Sbjct: 6672 DGDLLRY 6692 Score = 16.5 bits (31), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 324 KSLPREML 331 KSLPRE + Sbjct: 3884 KSLPREKI 3907 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIX_ECOLI P75697 Putative uncharacterized acetyltransferase yaiX (2.3.1.-) (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -3 Query: 4 LPFLLDANLSATNPP 18 +PFL D + +PP Sbjct: 6974 VPFLADT*TNGESPP 6930 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIY_ECOLI P0AAP7 Inner membrane protein yaiY (102 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +2 Query: 95 LHWRHR 100 L WRHR Sbjct: 3488 LRWRHR 3505 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAIZ_ECOLI P0AAQ0 Uncharacterized protein yaiZ (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.1, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = +3 Query: 35 AKGWQTYA 42 + GW TY+ Sbjct: 1704 SNGWSTYS 1727 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAJC_ECOLI P0ADZ7 UPF0092 membrane protein yajC (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = +1 Query: 16 AQGSPMSLILMLVV 29 A+G+ + I++LVV Sbjct: 6724 ARGAQATDIVVLVV 6765 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAJD_ECOLI P0AAQ2 Uncharacterized protein yajD (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.1, Method: Composition-based stats. Identities = 10/26 (38%), Positives = 12/26 (46%) Frame = -3 Query: 9 ARLESGYREKALKIYPWVCGRCSREF 34 AR S + KAL+ G CS F Sbjct: 2051 ARCASLAQPKALQ*ASLTMGSCS*SF 1974 Score = 16.5 bits (31), Expect = 2.1, Method: Composition-based stats. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = +2 Query: 15 YREKALKIYPWVCGRCSREFVYSNL 39 +RE+ KI + SRE + +L Sbjct: 4259 FREQEGKIVTATVKKVSRESIILDL 4333 Score = 16.2 bits (30), Expect = 2.9, Method: Composition-based stats. Identities = 3/7 (42%), Positives = 6/7 (85%) Frame = -3 Query: 25 WVCGRCS 31 ++C RC+ Sbjct: 2060 FICARCA 2040 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAJG_ECOLI P0ADA5 Uncharacterized lipoprotein yajG (Precursor) (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.2, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 1/32 (3%) Frame = +2 Query: 21 PPTTIEVSPTITLPQQDPSLMGVTVS-INGAD 51 PP ++ T+T + + VT S IN D Sbjct: 1259 PPALAKIGMTVTKRDRQQGNIAVTYSPINSRD 1354 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAJI_ECOLI P46122 Uncharacterized lipoprotein yajI (Precursor) (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = -2 Query: 108 NDPLPAFSGTVEYGQI 123 N+PLP+F ++ +I Sbjct: 204 NNPLPSFLYKIKTCRI 157 Score = 17.7 bits (34), Expect = 1.8, Method: Compositional matrix adjust. Identities = 15/55 (27%), Positives = 23/55 (41%) Frame = -2 Query: 85 MSLVNITPDADGTTLTLRIQGESNDPLPAFSGTVEYGQIQGTIDNFQEINVQNQL 139 ++++N+T D D R S+ A + + I T DNF NQL Sbjct: 6570 LTMINMTHDGDDGGA*SRFTRHSH---IAITHQCFFEFIFTTQDNFMTHFFSNQL 6415 Score = 16.9 bits (32), Expect = 2.7, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 20/41 (48%) Frame = +2 Query: 126 TIDNFQEINVQNQLINAPASVLAPSDVDIPLQLKGISVDQL 166 T++ QEI+ + N P S + I Q+K + D++ Sbjct: 4064 TLEAAQEISKEEAQQNTPISTESEIPTYIEDQIKSVVFDRI 4186 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAJO_ECOLI P77735 Uncharacterized oxidoreductase yajO (1.-.-.-) (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.33, Method: Compositional matrix adjust. Identities = 11/22 (50%), Positives = 11/22 (50%) Frame = -2 Query: 197 MLPLCYQEGVAVIPWSPLARGR 218 MLP C V VIP A GR Sbjct: 1320 MLPCCRSRLVTVIPIFANAGGR 1255 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 13/50 (26%), Positives = 19/50 (38%) Frame = +1 Query: 152 RYIGASSMHASQFAQALELQKQHGWAQFVSMQDHYNLIYREEEREMLPLC 201 RYI ++ H+ + + H + HY L E R PLC Sbjct: 832 RYIMVTNYHSDA-----KREPPHRRSSGCKSNAHYRLDKMEPSR*RCPLC 966 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = -3 Query: 207 AVIPWSPLARGRLTRPWG 224 A + SP+ RLT G Sbjct: 6308 ATVTVSPMITSRLTTATG 6255 Score = 16.5 bits (31), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 211 WSPLARGRLT 220 W P A GR++ Sbjct: 4452 WGPRASGRIS 4423 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAJQ_ECOLI P0A8E7 UPF0234 protein yajQ (163 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.2, Method: Compositional matrix adjust. Identities = 18/60 (30%), Positives = 26/60 (43%) Frame = -2 Query: 17 NAVDNASREVESRFDFRNVEASFELNDASKTIKVLSESDFQVNQLLDILRAKLLKRGIEG 76 NA+ NAS+ D F L AS T ++ S F ++ L+ I K G+ G Sbjct: 3930 NAISNASKIFSRGRD-------FSLETASTTARI---SLFILSCLV*I-----FKSGVPG 3796 Score = 16.2 bits (30), Expect = 4.4, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 8/8 (100%) Frame = -1 Query: 81 VPENIVHS 88 +PE++VH+ Sbjct: 6742 LPEHLVHA 6719 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YAJR_ECOLI P77726 Inner membrane transport protein yajR (454 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +1 Query: 335 YKGTAMGVYSTSQ 347 Y+G A VY+T Sbjct: 1627 YRGKAKTVYTTED 1665 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAA_ECOLI P0AAQ6 Uncharacterized protein ybaA (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.2, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +2 Query: 82 ANQKMMSDPRMKE 94 QKM PR+KE Sbjct: 6068 GQQKMKMMPRLKE 6106 Score = 15.4 bits (28), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 86 MMSDPRMKEFGES 98 +MSD M GES Sbjct: 6481 LMSDRDMGVAGES 6519 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAB_ECOLI P0A8B5 UPF0133 protein ybaB (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAE_ECOLI P46890 Uncharacterized protein ybaE (566 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 16/25 (64%), Gaps = 1/25 (4%) Frame = +1 Query: 22 QTVTVSELAERCFCSERHV-RTLLR 45 +TVTV+ELA + V +T+++ Sbjct: 6292 ETVTVAELANKMAVKGSQVIKTMMK 6366 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAJ_ECOLI P0AAR0 Uncharacterized protein ybaJ (124 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.4, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 98 QKWRKSGNRL 107 Q+W SGN L Sbjct: 794 QQWTLSGNPL 765 Score = 16.9 bits (32), Expect = 1.6, Method: Composition-based stats. Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 6/39 (15%) Frame = -3 Query: 76 IDEYLDDTFMLFSSYGINMQDLQKWR------KSGNRLF 108 ID + ++FS Q L+ W +GNRLF Sbjct: 3662 IDSFPQIVSIIFSG---KQQALKTWG*DL*VVGTGNRLF 3555 Score = 16.2 bits (30), Expect = 2.8, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +3 Query: 118 NPASLSC 124 NP ++SC Sbjct: 1389 NPVAISC 1409 Score = 15.8 bits (29), Expect = 3.7, Method: Composition-based stats. Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 6/36 (16%) Frame = +2 Query: 41 TSAINLQ------LNELIEHIATFALNYKIKYNEDN 70 TS I +Q LN+LIE + KI+ N +N Sbjct: 1058 TSNIEIQHYNRAMLNKLIEGLD------KIRSNSNN 1147 Score = 15.8 bits (29), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 8/16 (50%) Frame = -2 Query: 19 ETLYHDCLANLEESNH 34 + L+HD + NH Sbjct: 6798 DRLWHDPIIGRNNQNH 6751 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAK_ECOLI P0AAR3 Uncharacterized protein ybaK (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = -3 Query: 95 STGYLVGGISPLGQKKR 111 S Y+V I P+G + Sbjct: 2531 SVTYIVVPILPMGSPHK 2481 Score = 16.2 bits (30), Expect = 4.8, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 16/31 (51%) Frame = +2 Query: 33 VVKKLGLNPDQVYKTLLVAVNGDMKHLAVAV 63 VVK LGL + +V N +++H A+ Sbjct: 1016 VVKSLGLQQQEK----MVTSNIEIQHYNRAM 1096 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAL_ECOLI P39830 Inner membrane protein ybaL (558 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = -3 Query: 337 IAASLAQIGEFAFILAGLG 355 +A LAQ +F ++AGL Sbjct: 710 LAVILAQYRKFHAVMAGLS 654 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +1 Query: 286 FVSVGMLFDPLILIQ 300 F+S+ + PLI +Q Sbjct: 3475 FISITAMASPLICVQ 3519 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAM_ECOLI P45807 Uncharacterized protein ybaM (53 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAN_ECOLI P0AAR5 Inner membrane protein ybaN (125 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.4, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 8/17 (47%) Frame = -2 Query: 109 LFYMWRIPVIDEKQEKH 125 L +W P+I + H Sbjct: 6801 LDRLWHDPIIGRNNQNH 6751 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAO_ECOLI P0ACJ5 Uncharacterized HTH-type transcriptional regulator ybaO (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAP_ECOLI P77301 Uncharacterized protein ybaP (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/39 (23%), Positives = 18/39 (46%) Frame = -2 Query: 39 SIHMGSHDMAPLPTRLLKKLKNADALIVEADVSTSDTPF 77 H+G + PLP+ L K+K + + + ++ F Sbjct: 228 CCHIGRY*NNPLPS-FLYKIKTCRIITAQQNKIITNAGF 115 Score = 15.8 bits (29), Expect = 9.0, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 200 WLNAPPQN 207 W N+PP++ Sbjct: 3369 WTNSPPRH 3346 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAQ_ECOLI P0A9T6 Uncharacterized HTH-type transcriptional regulator ybaQ (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.8, Method: Composition-based stats. Identities = 8/20 (40%), Positives = 12/20 (60%) Frame = -1 Query: 55 MAFRLAKVFDTTVDFWLNLQ 74 M FR+ ++ TTV +LQ Sbjct: 1465 MPFRIGELHATTVAKITHLQ 1406 Score = 15.4 bits (28), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 94 RIETVAEYL 102 R+E VAE L Sbjct: 755 RVELVAECL 729 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAT_ECOLI P77400 Inner membrane transport protein ybaT (430 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 13/20 (65%) Frame = -1 Query: 350 SVASATFLICYLAVFVVAIR 369 S ++A + C+L F +AIR Sbjct: 3730 SPSTALMIPCHLRRFCIAIR 3671 Score = 18.5 bits (36), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = -2 Query: 15 LWNVVSIGIGAMVGAGIFA 33 +W+ + +GI V G+F Sbjct: 4161 IWSSI*VGISDSVEIGVFC 4105 Score = 16.9 bits (32), Expect = 8.1, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -2 Query: 344 NLGSLASVASATFLI 358 NLGS A AS + L+ Sbjct: 1386 NLGSCAPNASQSRLL 1342 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAV_ECOLI P0AAR8 Uncharacterized protein ybaV (Precursor) (123 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = -3 Query: 16 CAGMSHSALAAASVAKPTAVE 36 C+G+ S ASV P+A Sbjct: 314 CSGIKRSFKRPASVNLPSATR 252 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAY_ECOLI P77717 Uncharacterized lipoprotein ybaY (Precursor) (190 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.008 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.4 bits (54), Expect = 0.008, Method: Compositional matrix adjust. Identities = 18/57 (31%), Positives = 27/57 (47%) Frame = -1 Query: 88 KAVRTEGKQSPFSFVLSFNPADVQPNARILLSAAITVNDKLVFITDTVQPVINQGGT 144 + VR + F+L F QP +R+LLS LV +VQP++ GG+ Sbjct: 6028 RFVRLWVQAIYLHFLLPFYALLQQPVSRLLLSYG----ALLVLQNVSVQPLLPHGGS 5870 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBAZ_ECOLI P0AFP2 Uncharacterized protein ybaZ (129 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.7, Method: Compositional matrix adjust. Identities = 10/40 (25%), Positives = 18/40 (45%) Frame = -3 Query: 45 PEGYVTTYGDVAKLAGSPRAARQVGGVLKRLPEGSTLPWH 84 P TT ++ +A +PRA V + + T+P+ Sbjct: 6779 PSSAATTKTTIS-VA*APRARIDVNAACPGVSKKVTIPFS 6663 Score = 14.6 bits (26), Expect = 8.8, Method: Composition-based stats. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -1 Query: 89 RHGTISLTGPDLQRQRQ 105 R+GT + DLQ RQ Sbjct: 1696 RYGTPAPNN*DLQ*CRQ 1646 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBA_ECOLI P0A9T8 Uncharacterized ABC transporter ATP-binding protein ybbA (228 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.26, Method: Compositional matrix adjust. Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 2/38 (5%) Frame = +2 Query: 176 NLDRQTGDKIADLLFSLNREHG--TTLIMVTHDLQLAA 211 N+DR+TGD F R + ++M T ++ L A Sbjct: 3980 NIDRKTGD------FETFRRWKVVSEVVMPTREITLEA 4075 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 13/22 (59%) Frame = -1 Query: 190 FSLNREHGTTLIMVTHDLQLAA 211 F + H TT+ +TH LQL A Sbjct: 1459 FRIGELHATTVAKITH-LQLIA 1397 Score = 16.5 bits (31), Expect = 4.9, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 12/25 (48%) Frame = +1 Query: 165 PDVLFADEPTGNLDRQTGDKIADLL 189 P+ D P ++ + G I DLL Sbjct: 6919 PEEWGGDSPFVHVSAKKGTGIDDLL 6993 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = -1 Query: 6 IVEVHHLKKSVGQGEHELSILT 27 +V+ HH+K Q + ILT Sbjct: 4900 LVDRHHIKFPATQLRN*AYILT 4835 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBC_ECOLI P33668 Uncharacterized protein ybbC (Precursor) (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.8, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = -3 Query: 106 IEINKKNGCVLNFL 119 IEI+KKN + ++ Sbjct: 2558 IEISKKNTSSVTYI 2517 Score = 16.5 bits (31), Expect = 2.1, Method: Composition-based stats. Identities = 7/16 (43%), Positives = 11/16 (68%) Frame = -1 Query: 24 YGSDENIIFMRYVEKL 39 YGS+ IIF ++K+ Sbjct: 1600 YGSNSVIIFDSRLKKI 1553 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBD_ECOLI P33669 Putative uncharacterized protein ybbD (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.043 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.043, Method: Composition-based stats. Identities = 8/25 (32%), Positives = 15/25 (60%) Frame = -2 Query: 55 VFTWLPDFFPHVAVDISIYTNVEDD 79 +F+WL FP A+ + + T++ D Sbjct: 2796 IFSWLTQIFPLTALTVLLATHIT*D 2722 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBJ_ECOLI P0AAS3 Inner membrane protein ybbJ (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBL_ECOLI P77279 Uncharacterized ABC transporter ATP-binding protein ybbL (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.51, Method: Compositional matrix adjust. Identities = 21/71 (29%), Positives = 30/71 (42%), Gaps = 5/71 (7%) Frame = -3 Query: 21 KILNNINFSLRAGE-----FKLITGPSGCGKSTLLKIVASLISPTSGTLLFEGEDVSTLK 75 K +NI+FS E FK + +ST ++I A+ + +LF V T Sbjct: 5528 KCASNISFSC*VTELVSDFFKPASANCCMRRSTEVEISAASNFMVTSVMLFLPATVITH- 5352 Query: 76 PEIYRQQVSYC 86 YRQ YC Sbjct: 5351 ---YRQTSRYC 5328 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBM_ECOLI P77307 UPF0014 inner membrane protein ybbM (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = +3 Query: 237 CYLTYRKFYNSRH 249 CYL YR RH Sbjct: 2913 CYLQYRGGEIGRH 2951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBN_ECOLI P77395 Uncharacterized protein ybbN (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBO_ECOLI P0AFP4 Uncharacterized oxidoreductase ybbO (1.-.-.-) (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBP_ECOLI P77504 Uncharacterized ABC transporter permease ybbP (804 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 10/17 (58%) Frame = +2 Query: 554 TRPDHNPIVAGNWPPKA 570 R HNP VAG+ P A Sbjct: 3095 ARRAHNPKVAGSNPAHA 3145 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBV_ECOLI P75711 Uncharacterized protein ybbV (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.7, Method: Composition-based stats. Identities = 11/37 (29%), Positives = 15/37 (40%) Frame = +2 Query: 2 NRPAILKKKAAKDVASVLKXXXXXXXXXXARLKQRYS 38 N AIL+K + SVL R K++ S Sbjct: 488 NIMAILQKSVMIKIISVLWLMLLAACSTEQRYKRQVS 598 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBBY_ECOLI P77328 Putative purine permease ybbY (433 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCC_ECOLI P75717 Putative uncharacterized protein ybCC (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 4.9, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 6/12 (50%) Frame = +1 Query: 35 NYDPRMKREGLH 46 NY KRE H Sbjct: 850 NYHSDAKREPPH 885 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCD_ECOLI P77528 Putative uncharacterized protein ybcD (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCH_ECOLI P37325 Uncharacterized protein ybcH (Precursor) (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCI_ECOLI P45570 Inner membrane protein ybcI (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -3 Query: 62 HSLVFAFVVPLLC 74 SLV +++ LLC Sbjct: 4826 QSLVQNYLLQLLC 4788 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCJ_ECOLI P0AAS7 Uncharacterized protein ybcJ (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCK_ECOLI P77698 Uncharacterized protein ybcK (508 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 13/21 (61%) Frame = -2 Query: 122 IDSLNEPYSLIKAILIAQRAN 142 +DS+ EP++ K + + +N Sbjct: 789 VDSIREPFNSTKG*IGGRMSN 727 Score = 17.3 bits (33), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +3 Query: 175 PRWLSL 180 PRWLSL Sbjct: 2187 PRWLSL 2204 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCL_ECOLI P77368 UPF0098 protein ybcL (Precursor) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCM_ECOLI P77634 Uncharacterized HTH-type transcriptional regulator ybcM (265 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 3/24 (12%) Frame = +3 Query: 168 YNLLLSEPGTK---WTANKVARYL 188 YNL +S PG + +TA YL Sbjct: 3576 YNLEVSSPGLERLLFTAEDYTDYL 3647 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 9/21 (42%) Frame = +1 Query: 192 VSTLHRRLASEGVSFQSILDD 212 STL RLA+ DD Sbjct: 1225 TSTLRHRLATSAACVSKNRDD 1287 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCN_ECOLI Q47269 Uncharacterized protein ybcN in lambdoid DLP12 prophage region (151 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCO_ECOLI P68661 82 prophage-derived uncharacterized protein ybcO (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 62 DRRTHFVD 69 DRR +VD Sbjct: 1738 DRRLEYVD 1715 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCV_ECOLI P77598 Uncharacterized protein ybcV (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.0, Method: Composition-based stats. Identities = 6/19 (31%), Positives = 10/19 (52%) Frame = +1 Query: 18 LNCELFYSELKRHNVSHYI 36 L L E++ HN H++ Sbjct: 2428 LQSSLAMLEIEAHNKEHFL 2484 Score = 16.5 bits (31), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 61 KVVNVKFSRNT 71 K+VN FSR+ Sbjct: 475 KIVNPHFSRHP 443 Score = 16.2 bits (30), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -1 Query: 38 YLATDNIHIV 47 YLA D +H++ Sbjct: 5557 YLALDLVHVL 5528 Score = 16.2 bits (30), Expect = 3.1, Method: Composition-based stats. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +2 Query: 39 LATDNIHIVLENDN 52 L + I IVL +DN Sbjct: 4667 LGGERIDIVLWDDN 4708 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCW_ECOLI P64435 Uncharacterized protein ybcW (Precursor) (68 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.31, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +2 Query: 27 MSYPDVVIAC 36 MS+P + +AC Sbjct: 2177 MSFPPMAVAC 2206 Score = 16.9 bits (32), Expect = 0.90, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +3 Query: 22 NSTISMSYP 30 N TIS YP Sbjct: 6891 NRTISARYP 6917 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBCY_ECOLI P77460 Putative uncharacterized protein ybcY (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.4, Method: Composition-based stats. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +1 Query: 112 CVIRN 116 CVIRN Sbjct: 1876 CVIRN 1890 Score = 16.2 bits (30), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 16 HLLPHF 21 HLLPH+ Sbjct: 232 HLLPHW 215 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDB_ECOLI P0A8Y8 Esterase ybdB (3.1.-.-) (p15) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDD_ECOLI P0AAS9 Uncharacterized protein ybdD (65 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDF_ECOLI P0AAT2 Uncharacterized protein ybdF (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +2 Query: 68 YPSIKPG 74 YP KPG Sbjct: 3782 YPQSKPG 3802 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDG_ECOLI P0AAT4 Uncharacterized protein ybdG (415 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -2 Query: 395 LRLHQSPTGN 404 LRL +SPT N Sbjct: 1434 LRLPKSPTCN 1405 Score = 16.9 bits (32), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -1 Query: 114 SVFSLLDVILNLAQKF 129 S+FS L L Q+F Sbjct: 5848 SIFSFLQSAYFLCQRF 5801 Score = 16.5 bits (31), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = -2 Query: 101 TCAQLWIMMYA 111 TC +W++M + Sbjct: 4209 TCFAVWVVMRS 4177 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDH_ECOLI P45579 Uncharacterized oxidoreductase ybdH (1.1.-.-) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +2 Query: 190 TLPLTVRLGIN 200 T+PL+VRL + Sbjct: 1988 TIPLSVRLTVK 2020 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDJ_ECOLI P77506 Uncharacterized protein ybdJ (82 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDL_ECOLI P77806 Aminotransferase ybdL (2.6.1.-) (386 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/27 (22%), Positives = 16/27 (59%) Frame = +2 Query: 7 IPQSKLPQLGTTIFTQMSALAQQHQAI 33 +P+S+LP++ + ++ L + Q + Sbjct: 5030 VPESELPEIDSFDKKRLQELRDRAQNV 5110 Score = 18.1 bits (35), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +1 Query: 240 MTGWKVGYCVAPAPISAEIR 259 +T W + YC A I+A R Sbjct: 667 ITAWNLRYC---ASITARCR 717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDM_ECOLI P77174 Uncharacterized protein ybdM (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDN_ECOLI P77216 Uncharacterized protein ybdN (406 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.23, Method: Compositional matrix adjust. Identities = 11/20 (55%), Positives = 12/20 (60%) Frame = -2 Query: 42 LMLHLTAELARQMGKKICVL 61 L L LTA LAR G +I L Sbjct: 4599 LSLVLTAILARDAGSRIAAL 4540 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDO_ECOLI P77746 Uncharacterized HTH-type transcriptional regulator ybdO (300 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = -1 Query: 41 VSQSLQRLRAQF 52 ++SLQ ++AQF Sbjct: 2395 TNESLQSVQAQF 2360 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 17/35 (48%) Frame = -3 Query: 94 SELKKNFIIYGPQLISCSNNSMLIRCLRQDSSVEI 128 +EL +F + P +C C+R+ + VEI Sbjct: 5492 TELVSDF--FKPASANC--------CMRRSTEVEI 5418 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDR_ECOLI P77316 Uncharacterized zinc-type alcohol dehydrogenase-like protein ybdR (1.-.-.-) (412 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.45, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = +1 Query: 369 RGYEIFEKREEECRKVILVP 388 RG+ +FEK + R +P Sbjct: 3292 RGFLLFEKNDWAIRPFFFMP 3351 Score = 18.5 bits (36), Expect = 2.6, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 10/24 (41%) Frame = +1 Query: 2 KALTYHGPHHVQVENVPDPGVEQA 25 KA T QVE P EQA Sbjct: 5695 KAKTEQAKQVEQVEKKPAKAEEQA 5766 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 203 IACARLLGAEQIFVV 217 IACA L + +F+V Sbjct: 4824 IACAELPSSTAMFIV 4780 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 211 AEQIFVVDHH 220 AEQI + D+H Sbjct: 6016 AEQIELTDYH 6045 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBDZ_ECOLI P18393 Uncharacterized protein ybdZ (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBEB_ECOLI P0AAT6 Uncharacterized protein ybeB (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.3, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 7/11 (63%) Frame = +3 Query: 47 HVMSIADHVVQ 57 HV+ +HV + Sbjct: 4620 HVLGCGEHVFK 4652 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBED_ECOLI P0A8J4 UPF0250 protein ybeD (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.39, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -3 Query: 26 ELVDQVVEVVQRH 38 ELV + + V QRH Sbjct: 749 ELVAECLTVCQRH 711 Score = 15.4 bits (28), Expect = 3.1, Method: Composition-based stats. Identities = 4/5 (80%), Positives = 5/5 (100%) Frame = -2 Query: 37 RHAPG 41 RH+PG Sbjct: 3543 RHSPG 3529 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBEF_ECOLI P30979 Uncharacterized HTH-type transcriptional regulator ybeF (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +3 Query: 51 KVLNLTPSAIS 61 K+LN P AIS Sbjct: 1374 KILN*NPVAIS 1406 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBEL_ECOLI P0AAT9 Uncharacterized protein ybeL (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 5/8 (62%) Frame = -1 Query: 131 HFHLPIYT 138 HF LP Y Sbjct: 5992 HFLLPFYA 5969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBEM_ECOLI P39874 Putative UPF0012 hydrolase ybeM (3.5.-.-) (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = -3 Query: 103 NIVARYAK 110 N+V+RY+K Sbjct: 1082 NVVSRYSK 1059 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBEQ_ECOLI P77234 Uncharacterized protein ybeQ (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.34, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%) Frame = -3 Query: 6 SCCDNLSIDEIIERAEKGDCEAQYIV 31 CC+ +S IE ++K YIV Sbjct: 2591 PCCNTISAISPIEISKKNTSSVTYIV 2514 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBER_ECOLI P77627 Uncharacterized protein ybeR (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.45, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 12/26 (46%) Frame = +3 Query: 172 WQSPEDDHLPLLREFLARKEYDDSGN 197 WQ L ++R +RKE D N Sbjct: 5319 WQPAISAGLAIMRNNCSRKEQHDRCN 5396 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -2 Query: 70 AGFYH 74 AGFYH Sbjct: 123 AGFYH 109 Score = 15.8 bits (29), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = -2 Query: 72 FYHRWFRYSPCEWRD 86 + ++W SP W+D Sbjct: 6957 YVNKWGISSPLFWQD 6913 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBET_ECOLI P77296 Uncharacterized protein ybeT (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBEU_ECOLI P77427 Uncharacterized protein ybeU (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBEY_ECOLI P0A898 Putative metalloprotease ybeY (3.4.24.-) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -2 Query: 10 LACEDNSGLPEESQFQ 25 L EDN L SQF+ Sbjct: 2931 LGIEDNIFLDH*SQFK 2884 Score = 16.2 bits (30), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +2 Query: 143 ALGYEDPYI 151 ALG +DP + Sbjct: 1361 ALGAQDPKL 1387 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFA_ECOLI P0AAU2 Uncharacterized protein ybfA (Precursor) (68 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.76, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 7 YPAWLIFLRRTY 18 YP +FLRR Y Sbjct: 4370 YPPVQLFLRRYY 4335 Score = 13.9 bits (24), Expect = 7.3, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 5/11 (45%) Frame = +2 Query: 47 WSKTSDKPVWM 57 WS + WM Sbjct: 1682 WSSVTIHQQWM 1714 Score = 13.9 bits (24), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 36 RARFYSYLHRVW 47 R R Y Y + VW Sbjct: 3498 RHRSYRYKYAVW 3463 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFB_ECOLI P0AAU5 Uncharacterized protein ybfB (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.8, Method: Composition-based stats. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 68 VSDIIGVRIDSKYI 81 VSD+IG R S I Sbjct: 419 VSDVIGKRKVSAVI 378 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFC_ECOLI P28915 Uncharacterized protein ybfC (Precursor) (189 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.9, Method: Compositional matrix adjust. Identities = 11/42 (26%), Positives = 17/42 (40%) Frame = -3 Query: 57 NEDIGEYYWQTELGTCKNNKFTPSGARLLIRVGSLRLNENHA 98 N I YY C+N+ R+LI + ++ NH Sbjct: 1454 NR*IARYYG------CQNHPLATDSYRILI*DLAHLMHPNHG 1347 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFD_ECOLI P28916 H repeat-associated protein ybfD (ORF-H3) (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 51 GETHPDFLKQYG 62 G+THP +K+ G Sbjct: 3368 GQTHPQGIKKKG 3333 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFE_ECOLI P0AAU7 Uncharacterized protein ybfE (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFF_ECOLI P75736 Esterase ybfF (3.1.-.-) (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 5/21 (23%) Frame = +1 Query: 203 GGNSPYVSEQYR-----DDLL 218 GG+SP+V + DDLL Sbjct: 6931 GGDSPFVHVSAKKGTGIDDLL 6993 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +2 Query: 164 KSFVDGEWRFNVP 176 +SFV+G + N+P Sbjct: 239 RSFVNG*LKVNLP 277 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFG_ECOLI P37003 Putative uncharacterized protein ybfG (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 13/31 (41%) Frame = -1 Query: 123 GCVYYFAPDTLNWESLEVGYSEFLQWALSGD 153 + FAPD L+ S + QW + D Sbjct: 2071 NSAFSFAPDALH*PSQRLYSKPH*QWDRAAD 1979 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 11/22 (50%), Gaps = 1/22 (4%) Frame = -1 Query: 63 GLLIDNGXLRIAG-SGHPRLPR 83 G LI NG HP+LPR Sbjct: 3889 GFLIRNGFYNSQNLFVHPKLPR 3824 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 15/31 (48%) Frame = +2 Query: 34 VNKDLAETALYQLQVTTKSPMGALVYGSGGL 64 ++D+ YQ+ V + ALV S GL Sbjct: 944 ADEDVPFAGRYQISVQQQGNQLALVVKSLGL 1036 Score = 16.5 bits (31), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +2 Query: 88 WTQRPEFAGVRALPIAD 104 W+Q +LPIAD Sbjct: 842 WSQITTVMQNESLPIAD 892 Score = 16.5 bits (31), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 145 FLQWALSGD 153 + QW LSG+ Sbjct: 797 YQQWTLSGN 771 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFI_ECOLI P39901 Putative uncharacterized protein ybfI (65 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.8, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 38 HLRQKLEQDPAR 49 HLRQ PA+ Sbjct: 2058 HLRQMRFTSPAK 2023 Score = 14.2 bits (25), Expect = 4.9, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = +3 Query: 45 QDPARPRHFITET 57 QDP R TET Sbjct: 5868 QDPP*GRSG*TET 5906 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFK_ECOLI P46121 Uncharacterized protein ybfK (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 3.9, Method: Composition-based stats. Identities = 6/21 (28%), Positives = 9/21 (42%) Frame = -2 Query: 64 NMSCPPYMGHSAAVIFHLIYL 84 N+ PY I+HL + Sbjct: 5598 NI*SAPYFPLQRKFIWHLTWF 5536 Score = 15.0 bits (27), Expect = 4.7, Method: Composition-based stats. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -1 Query: 69 PYMGHSAAVI 78 PY HS+ ++ Sbjct: 6502 PYRDHSSVLL 6473 Score = 14.6 bits (26), Expect = 5.3, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +1 Query: 14 GLTENE 19 G+TEN+ Sbjct: 1921 GITENQ 1938 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFL_ECOLI P75741 Putative protein ybfL (H repeat-associated protein in rhsC-phrB intergenic region) (ORF-H2) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.26, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 16/29 (55%) Frame = +1 Query: 47 IEDFGETHLDFLKQYGDFENGIPVHDTIA 75 +D G +DF ++G FEN I + D + Sbjct: 2101 FDDAGLILVDFKLEFGLFENKITLGDEFS 2187 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 10/46 (21%) Frame = -2 Query: 74 IARVVSCISPAKFHECFINWMR--DCH-----SSNDK---DVIAID 109 I +V C FH CF N +R +CH S+ D+ D +A+D Sbjct: 6402 INNLVDCCHTT*FHHCF-NDLRAFNCHFIR*FSNGDRFTNDNVAVD 6268 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = +2 Query: 81 ISPAKFHECF 90 +SP K+++CF Sbjct: 1799 VSPHKWNDCF 1828 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +3 Query: 301 NHWHVENKLHWRLDV 315 NHW NK W L + Sbjct: 1023 NHWVYNNKKKWLLRI 1067 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFM_ECOLI P75733 Uncharacterized protein ybfM (468 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 14/26 (53%) Frame = +3 Query: 131 ISLYKAAAKFKYGPVWARAGYIQPTG 156 +SLY++ KF G + Y+Q G Sbjct: 2856 LSLYRSTKKF*IGSNDLKKCYLQYRG 2933 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 11/42 (26%), Positives = 16/42 (38%) Frame = -3 Query: 301 RAADVVDLRLEGTWVKADGQQGYFLQRMTPTYASSNGRLDIW 342 R + D+ L + K G P Y S+N + IW Sbjct: 1721 R*PSIADVSLRNSSTK*LGSSVV*TVLAFPRYNSANFCISIW 1596 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFN_ECOLI P75734 Uncharacterized lipoprotein ybfN (Precursor) (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFO_ECOLI P77779 Putative uncharacterized protein ybfO (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +1 Query: 414 TKTASDYLPQTNWPTTQLP 432 ++T D LP+T Q+P Sbjct: 4 SRTGCDLLPETVVRLAQIP 60 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFP_ECOLI P75737 Uncharacterized lipoprotein ybfP (Precursor) (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.9, Method: Composition-based stats. Identities = 5/19 (26%), Positives = 10/19 (52%) Frame = -1 Query: 97 VGLNPGWQCYTSFFMRVCQ 115 + +NP + FF+ C+ Sbjct: 3988 IDINPDFNFLFMFFLGRCR 3932 Score = 15.8 bits (29), Expect = 5.3, Method: Composition-based stats. Identities = 8/23 (34%), Positives = 10/23 (43%) Frame = -1 Query: 53 NIAPFRCKTNCRGDNLPDNTRRW 75 N P+R T N +T RW Sbjct: 4627 NTCPYRIDTLVVSFNCDFST*RW 4559 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBFQ_ECOLI Q2EEQ8 Putative defective transposase ybfQ (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.039 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.039, Method: Composition-based stats. Identities = 10/28 (35%), Positives = 16/28 (57%) Frame = +1 Query: 48 EDFGETHLDFLKQYGDFENGIPVHDTIA 75 +D G +DF ++G FEN I + D + Sbjct: 2104 DDAGLILVDFKLEFGLFENKITLGDEFS 2187 Score = 14.6 bits (26), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 11 SITPDYR 17 SIT +YR Sbjct: 2848 SITEEYR 2828 Score = 14.2 bits (25), Expect = 7.6, Method: Composition-based stats. Identities = 3/9 (33%), Positives = 5/9 (55%) Frame = +1 Query: 13 TPDYRQAWK 21 +P Y W+ Sbjct: 5323 SPQYLLVWR 5349 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGA_ECOLI P24252 Uncharacterized protein ybgA (TKP) (ORF169) (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGC_ECOLI P0A8Z3 Acyl-CoA thioester hydrolase ybgC (3.1.2.-) (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.23, Method: Composition-based stats. Identities = 11/43 (25%), Positives = 19/43 (44%) Frame = -3 Query: 22 VVYHASYVAFYERARTEMLRHHHFSQQALMAERVAFVVRKMTV 64 V YH +++ F E + H H + +A + F V + V Sbjct: 5159 VCYHQNFLLFLEPMWSVHSGHDHAALEASFCQNYQFPVIRFLV 5031 Score = 16.9 bits (32), Expect = 1.8, Method: Composition-based stats. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +1 Query: 52 AERVAFVVRKMTVE 65 A+RVA RKM E Sbjct: 5947 AKRVAEEARKMAAE 5988 Score = 15.0 bits (27), Expect = 8.6, Method: Composition-based stats. Identities = 5/22 (22%), Positives = 11/22 (50%) Frame = -1 Query: 23 VYHASYVAFYERARTEMLRHHH 44 +Y + +FY + + + HH Sbjct: 2239 LYPSFLTSFYPTSDSHRGKTHH 2174 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGD_ECOLI P37909 Uncharacterized fimbrial-like protein ybgD (Precursor) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGE_ECOLI P0AAV0 Uncharacterized protein ybgE (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.3, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 4/6 (66%) Frame = +1 Query: 30 GCMFWD 35 GC WD Sbjct: 2194 GCRLWD 2211 Score = 14.2 bits (25), Expect = 8.1, Method: Composition-based stats. Identities = 4/17 (23%), Positives = 10/17 (58%) Frame = -2 Query: 1 MSKIIATLYAVMDKRPL 17 + K +++ A +RP+ Sbjct: 1215 LGKALSSRAACTSRRPI 1165 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGF_ECOLI P45955 Uncharacterized protein ybgF (Precursor) (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 14/18 (77%) Frame = -3 Query: 1 MSSNFRHQLLSLSLLVGI 18 ++++ +LLSLSLL+ + Sbjct: 557 LTTSATKRLLSLSLLIFV 504 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGH_ECOLI P75742 Inner membrane transporter ybgH (493 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGI_ECOLI P0AFP6 UPF0135 protein ybgI (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.66, Method: Compositional matrix adjust. Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 11/76 (14%) Frame = +2 Query: 165 VQRVAWCTGGGQSFI----DSAARFGVDAFITGEVSE-------QTIHSAREQGLHFYAA 213 VQ V+ GG + I D+ A+F ++A EV+ +T++ A E+G A Sbjct: 4646 VQAVSNELGGERIDIVLWDDNPAQFVLNAMAPAEVASIVVDEDAKTMNIAVEEGNSAQAI 4825 Query: 214 GHHATERGGIRALSEW 229 G + + LS W Sbjct: 4826 GRNGQNVRLVSQLSGW 4873 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -2 Query: 150 LGRKPLWCGD 159 LG +PL C D Sbjct: 3600 LGMRPLSCRD 3571 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%), Gaps = 3/16 (18%) Frame = +1 Query: 63 HHGYF---WKGESPVI 75 HG W G+SP + Sbjct: 6904 QHGILPEEWGGDSPFV 6951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGJ_ECOLI P0AAV4 Uncharacterized protein ybgJ (218 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -1 Query: 147 HTPRRAEPRLLVPAGSV 163 H P++ +PR L+P V Sbjct: 6775 HRPQQPKPRYLLPEHLV 6725 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 16/34 (47%) Frame = -3 Query: 31 WRLAQRLVDMPNVVEAIPGMNNITVILRNPESLA 64 W L+ M + G+++ +L+ PESL Sbjct: 3944 WSLSLMQFLMLQKSSHVEGISH*KRLLQQPESLC 3843 Score = 15.8 bits (29), Expect = 9.0, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 12/20 (60%) Frame = +2 Query: 13 AVVLELEPPVTLASQKRIWR 32 +V L ++P L KRIWR Sbjct: 2000 SVRLTVKPLAGLV--KRIWR 2053 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGK_ECOLI P75745 Uncharacterized protein ybgK (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 223 ELLSHGLLP 231 EL HG+LP Sbjct: 6895 ELSQHGILP 6921 Score = 16.9 bits (32), Expect = 5.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = +1 Query: 270 AQIPLGQPIH 279 QIP PIH Sbjct: 2989 VQIPSSVPIH 3018 Score = 16.9 bits (32), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 123 PVMGSC 128 P+MGSC Sbjct: 6770 PMMGSC 6787 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGL_ECOLI P75746 UPF0271 protein ybgL (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGO_ECOLI P75748 Uncharacterized protein ybgO (Precursor) (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 67 YCDNNTNGNFE 77 + DNN NG+F Sbjct: 6855 FVDNNDNGDFR 6823 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGP_ECOLI P75749 Uncharacterized fimbrial chaperone ybgP (Precursor) (242 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.17 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.17, Method: Compositional matrix adjust. Identities = 9/13 (69%), Positives = 10/13 (76%) Frame = +2 Query: 153 QLQVSQQGNQLTL 165 Q+ V QQGNQL L Sbjct: 977 QISVQQQGNQLAL 1015 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%), Gaps = 3/17 (17%) Frame = +2 Query: 155 QVSQQ---GNQLTLKNP 168 QVSQQ G QL ++ P Sbjct: 695 QVSQQGAVGKQLDIRPP 745 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGQ_ECOLI P75750 Uncharacterized outer membrane usher protein ybgQ (Precursor) (815 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.28, Method: Compositional matrix adjust. Identities = 14/40 (35%), Positives = 19/40 (47%) Frame = +1 Query: 548 IYLSISLPFGNGGRVGYDMQNSSHSTIHRMSWNDTLDERN 587 + L +LP G R+G +Q S IHR S D+R Sbjct: 2935 VKLVDTLP*GGSARLGLRVQIPSSVPIHRDSLLLDDDQRT 3054 Score = 20.8 bits (42), Expect = 1.1, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 17/31 (54%) Frame = -1 Query: 225 QLGSKLTLGETDFSSNIFDGFSYTGAALASD 255 +L S L L ++DF ++ FDG + L D Sbjct: 2809 RLFSHL*LVDSDFPTHCFDGVACYSYYLRPD 2717 Score = 19.6 bits (39), Expect = 2.6, Method: Compositional matrix adjust. Identities = 17/74 (22%), Positives = 29/74 (39%) Frame = +2 Query: 717 IKETWIEGAIGYKSLASRSGKDVNVIIRNASGQFPPLGADIRQDDSGISVGMVGEEGHAW 776 I E IE + ASR+ + ++ + P+GA VGM G A Sbjct: 4517 IDEELIEIKAAIRDPASRA----KIAVKTNDKRIDPIGA---------CVGMRGARVQAV 4657 Query: 777 LSGVAENQLFTVVW 790 + + ++ V+W Sbjct: 4658 SNELGGERIDIVLW 4699 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGS_ECOLI P0AAV6 Uncharacterized protein ybgS (Precursor) (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 100 CPDINKKV 107 CP ++KKV Sbjct: 6701 CPGVSKKV 6678 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBGT_ECOLI P56100 Uncharacterized protein ybgT (37 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.1, Method: Composition-based stats. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 15 SFGVIT 20 SFGVIT Sbjct: 4351 SFGVIT 4334 Score = 14.2 bits (25), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 14 CSFGVITALA 23 C F ITA+A Sbjct: 3469 CVFISITAMA 3498 Score = 13.1 bits (22), Expect = 7.5, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 3 YFAWILGTLL 12 Y W++ TLL Sbjct: 6267 YSNWLIETLL 6238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHA_ECOLI P21829 Phosphatase ybhA (3.1.3.-) (272 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.85, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 3/28 (10%) Frame = +3 Query: 99 EHHIHGLMYVDDAMVYEHPT---GHVIR 123 + H+ +Y D ++YEHPT G+V R Sbjct: 1185 KRHVTIALYPD--LLYEHPTPSFGNVCR 1262 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 11/40 (27%), Positives = 16/40 (40%) Frame = +1 Query: 220 AFGDNFNDISMLEAAGTGVAMGNADDAVKARANIVIGDNT 259 + GDNF +S +A G + AN+ G T Sbjct: 121 SVGDNFILLSGDDATGFDFIQKGGQGIISVTANVAAGGMT 240 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 18/33 (54%) Frame = -1 Query: 137 PTFTQVASLAETAQQVNAVWKFALTHDDLPQLQ 169 P F +ASL + A +NA+ T++ L +Q Sbjct: 2461 PLF--LASLKKIANNLNAI*NGVDTNESLQSVQ 2369 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHB_ECOLI P12994 UPF0098 protein ybhB (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHC_ECOLI P46130 Putative acyl-CoA thioester hydrolase ybhC (3.1.2.-) (Precursor) (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.6, Method: Compositional matrix adjust. Identities = 18/57 (31%), Positives = 25/57 (43%) Frame = -2 Query: 54 DAQHYFASLTPGAAAWNPSPITLPAQPDFVVGPAGTQGVTHTTIQAAVDAAIIKRTN 110 + + F L P A A PS + F+V + + TTI+A AI RTN Sbjct: 4857 ETKRTF*PLRPIACAELPSSTAM-----FIVFASSS-----TTIEATSAGAIALRTN 4717 Score = 17.7 bits (34), Expect = 5.2, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = +2 Query: 297 NTEFRVVNSRTQQEAYVFAPA 317 +TE R + EAY+ APA Sbjct: 566 STEQRYKRQVSGDEAYLNAPA 628 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHD_ECOLI P52696 Uncharacterized HTH-type transcriptional regulator ybhD (317 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHF_ECOLI P0A9U1 Uncharacterized ABC transporter ATP-binding protein ybhF (578 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.60, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -3 Query: 515 VTTHFMDEAEYCDRIGLVYR 534 V TH+ + YC L+YR Sbjct: 5363 VITHYRQTSRYCGLP*LIYR 5304 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHG_ECOLI P75777 UPF0194 membrane protein ybhG (Precursor) (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 322 TVQFGDEAGH 331 +VQF D GH Sbjct: 1436 SVQFTDSKGH 1465 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = +2 Query: 242 WVRAYVDERNLDQAQPGRKVL 262 W R V + Q++PG +L Sbjct: 3752 WKR*SVRTKQYPQSKPGTPLL 3814 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHH_ECOLI P0AAV8 Uncharacterized protein ybhH (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = -2 Query: 19 LLAEHLPEDQTQRDK 33 LLA H+ DQT K Sbjct: 2748 LLATHIT*DQTNNKK 2704 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHI_ECOLI P75763 Inner membrane protein ybhI (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHJ_ECOLI P75764 Uncharacterized protein ybhJ (753 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.4, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 1/29 (3%) Frame = -2 Query: 391 PSSQPVFMDLAKKGVVADLIGAGAI-IRT 418 PSS +F+ A + AGAI +RT Sbjct: 4806 PSSTAMFIVFASSSTTIEATSAGAIALRT 4720 Score = 19.2 bits (38), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%), Gaps = 1/16 (6%) Frame = +2 Query: 518 LIYGP-NIKDWPELGA 532 + Y P N +DW LGA Sbjct: 1325 VTYSPINSRDWDALGA 1372 Score = 18.9 bits (37), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = +2 Query: 349 RLKVQQGIIAGCSGGNYE 366 RL QGII G Y+ Sbjct: 635 RLNASQGIILPLQHGTYD 688 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHK_ECOLI P75767 UPF0052 protein ybhK (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 82 EYRFGGN 88 ++RFGGN Sbjct: 4138 DFRFGGN 4118 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHL_ECOLI P0AAC4 Inner membrane protein ybhL (234 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHM_ECOLI P75769 Uncharacterized protein ybhM (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 12/15 (80%) Frame = -2 Query: 161 IWIISCLMIVLWSGI 175 ++I+SCL+ + SG+ Sbjct: 3846 LFILSCLV*IFKSGV 3802 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHN_ECOLI P75770 Inner membrane protein ybhN (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHO_ECOLI P0AA84 Putative cardiolipin synthetase ybhO (Cardiolipin synthase) (CL synthase) (2.7.8.-) (413 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = -1 Query: 368 HFLRHFPALVG 378 HF HFP G Sbjct: 4042 HFTDHFPTTEG 4010 Score = 17.7 bits (34), Expect = 5.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 366 AFHFLRHFPAL 376 +FH L H+P L Sbjct: 238 SFHLLPHWPLL 206 Score = 17.3 bits (33), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +1 Query: 288 PLHGKVALMDDHWATV 303 P+H L+DD T+ Sbjct: 3010 PIHRDSLLLDDDQRTI 3057 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHP_ECOLI P0AAW1 Uncharacterized protein ybhP (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.74, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +3 Query: 20 GFTAFNRRFILPELRD 35 G TAF +R I ++RD Sbjct: 1815 GTTAFRQRSIGKKIRD 1862 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 8/13 (61%) Frame = +3 Query: 119 KRGVLYCRIVPPM 131 KRG C IVP M Sbjct: 5070 KRGFKSCVIVPRM 5108 Score = 16.2 bits (30), Expect(2) = 7.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 75 DTMWSDFAYGRN 86 D +W D GRN Sbjct: 6798 DRLWHDPIIGRN 6763 Score = 15.0 bits (27), Expect(2) = 7.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -2 Query: 64 WPDTSHYEFLADTMW 78 W DT F + T+W Sbjct: 6921 WQDTVLR*FCSKTLW 6877 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHQ_ECOLI P0AAW5 Inner membrane protein ybhQ (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 8.7, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = -2 Query: 48 YCVTVVM 54 +C+TVV+ Sbjct: 870 FCITVVI 850 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHR_ECOLI P0AFP9 Inner membrane transport permease ybhR (368 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 13/34 (38%) Frame = -1 Query: 268 VGFGLLISSLCSTQQQAFIGVFVFMMPAILLSGY 301 +G + L A +VF ILLS Y Sbjct: 4453 LGTSCFRTYLIQNTSNAVTRAYVFTRQHILLSNY 4352 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = -3 Query: 134 NYLQQIVKNYQQELLEGKP 152 +Y I+ YQQ L G P Sbjct: 824 DYCLTIIY*YQQWTLSGNP 768 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHS_ECOLI P0AFQ2 Inner membrane transport permease ybhS (377 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 9/17 (52%) Frame = -3 Query: 318 PAVIRAVTYIIPARYFV 334 PA AVT IIP F Sbjct: 230 PAATLAVTEIIPCPPFC 180 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 171 YWFNPAAISQHF 182 ++FN +QHF Sbjct: 4513 WYFNAEKFNQHF 4478 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHT_ECOLI P0AAW9 Uncharacterized protein ybhT (Precursor) (49 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBHU_ECOLI A5A609 Uncharacterized protein ybhU (45 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 8 KNKRYFFEPSL 18 KN+R+ PSL Sbjct: 3991 KNRRFRDLPSL 4023 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIA_ECOLI P30176 Swarming motility protein ybiA (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.12, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 12/27 (44%) Frame = +2 Query: 27 GDFSNFAAWPIKVDGKTWPTSEHYFQA 53 GDF F W + V PT E +A Sbjct: 3998 GDFETFRRWKV-VSEVVMPTREITLEA 4075 Score = 15.4 bits (28), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -1 Query: 16 IINFYSTSDDY 26 + +FY TSD + Sbjct: 2224 LTSFYPTSDSH 2192 Score = 15.4 bits (28), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 50 YFQAQKF 56 YF A+KF Sbjct: 4510 YFNAEKF 4490 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIB_ECOLI P30177 Uncharacterized protein ybiB (320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 7/15 (46%) Frame = +1 Query: 154 VFMPVGAFCPPLEKQ 168 FMP G CP K Sbjct: 3340 FFMPWG*VCPRWNKN 3384 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 230 GEVYANPQ 237 GE+ +NPQ Sbjct: 39 GEISSNPQ 62 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIC_ECOLI P30178 Uncharacterized oxidoreductase ybiC (1.1.1.-) (361 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.022 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.022, Method: Compositional matrix adjust. Identities = 13/57 (22%), Positives = 30/57 (52%) Frame = +2 Query: 266 DAILNCMTTIIINPELFGAPDCNAQTEAFAEWVKASPHDDDKPILLPGEWEVNTRRE 322 D + + +TT++ N L A +A +W+K + D+D P G ++++ +++ Sbjct: 833 DTLWSQITTVMQNESLPIADRQDANQTLTTDWIKWNRADEDVP--FAGRYQISVQQQ 997 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIH_ECOLI P0ACU0 Uncharacterized HTH-type transcriptional regulator ybiH (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBII_ECOLI P41039 Uncharacterized protein ybiI (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.1, Method: Composition-based stats. Identities = 9/31 (29%), Positives = 12/31 (38%) Frame = -2 Query: 9 DAVNEQINSTIEDAIARARGEIPRGESLDEC 39 D++ E NST R +P D C Sbjct: 786 DSIREPFNSTKG*IGGRMSNCLPTAPCCDTC 694 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIJ_ECOLI P0AAX3 Uncharacterized protein ybiJ (Precursor) (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.65, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +2 Query: 28 ASQAQNMNKIGVVSADGA 45 ++ AQN +KIG + A Sbjct: 1139 SNNAQNTDKIGRLEVQAA 1192 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIO_ECOLI P75783 Uncharacterized mscS family protein ybiO (741 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 12/24 (50%) Frame = +3 Query: 468 IRIALILFFSAVGWTVLASLIENR 491 +R A +FF+ WT A I R Sbjct: 2520 VRNAASIFFTDFDWTYCAYRIATR 2591 Score = 19.6 bits (39), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = -2 Query: 130 NPQTFSNALTHF 141 NP TFSN L F Sbjct: 2307 NPDTFSNLLIGF 2272 Score = 19.2 bits (38), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 12/17 (70%) Frame = -1 Query: 346 VWHWLASAYFIVLFFFS 362 ++ +L SAYF+ FFS Sbjct: 5845 IFSFLQSAYFLCQRFFS 5795 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIP_ECOLI P75785 Putative phosphoethanolamine transferase ybiP (2.7.-.-) (527 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.5, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -1 Query: 404 LYDQLRNSGSSFSLVYF 420 L+ +L N SFS YF Sbjct: 4270 LFTKLLNHYCSFSFAYF 4220 Score = 17.3 bits (33), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +1 Query: 170 KDTGYPVFR 178 K TG+P F+ Sbjct: 3790 KQTGHPTFK 3816 Score = 17.3 bits (33), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -1 Query: 145 CLVFSVAT 152 C VFSVAT Sbjct: 5587 CSVFSVAT 5564 Score = 16.9 bits (32), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 54 WRTLPRVQKV 63 WRTL + Q V Sbjct: 4982 WRTLHQFQDV 4953 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIR_ECOLI P75788 Inner membrane protein ybiR (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 13/37 (35%), Positives = 19/37 (51%) Frame = -2 Query: 3 LPFLRTLQGDRFFQLLILVGIGLSFFVPFAPKSWPAA 39 L F T RFF + +G ++FF+ F + PAA Sbjct: 6225 LSFAFTANSPRFFTICF*LGEFIAFFL-FGSFTSPAA 6118 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +1 Query: 141 GNPQNILIW 149 G+PQ +L+W Sbjct: 5320 GSPQYLLVW 5346 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 13/18 (72%) Frame = -3 Query: 284 WLTAIGLSQVISNVPSTI 301 LTAIGL+ + +++ S I Sbjct: 356 HLTAIGLASINNSLCSGI 303 Score = 16.9 bits (32), Expect = 6.2, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 5/24 (20%) Frame = -1 Query: 108 LTITLKRLCEIP-----VNRLIIF 126 LTI RLC I V+R +F Sbjct: 4840 LTIAPNRLCRITFFNCYVHRFCVF 4769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIS_ECOLI P0AAX8 Uncharacterized protein ybiS (Precursor) (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +2 Query: 254 NPLSTTEAQFEGQEI 268 N LST Q G+EI Sbjct: 6896 NYLSTVSCQKSGEEI 6940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIT_ECOLI P0A9U3 Uncharacterized ABC transporter ATP-binding protein ybiT (530 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.0, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +3 Query: 430 DDIKKPAKVLSGGEKGR 446 +D+KK GGE GR Sbjct: 2898 NDLKKCYLQYRGGEIGR 2948 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIU_ECOLI P75791 Uncharacterized protein ybiU (421 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.65, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 8/15 (53%) Frame = +2 Query: 122 PGDNFFGTLSASRPE 136 PGD G L RPE Sbjct: 4394 PGDRIRGILYEIRPE 4438 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 11/24 (45%) Frame = +3 Query: 370 KNLAYAHKVKAALEKGASPGDFPR 393 K + Y HK+ + ASP R Sbjct: 828 KTIHYGHKLPQ*CKTRASPSPIVR 899 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBIX_ECOLI P75779 PKHD-type hydroxylase ybiX (1.14.11.-) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJC_ECOLI P46119 Uncharacterized protein ybjC (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.6, Method: Composition-based stats. Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 2/30 (6%) Frame = -1 Query: 68 AKRLAPQLMNRPPQ--YSRSEREKDNDANH 95 A AP ++ P Q YS+ + D A+H Sbjct: 2065 AFSFAPDALH*PSQRLYSKPH*QWDRAADH 1976 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJD_ECOLI P75828 Uncharacterized protein ybjD (552 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.7, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 3/22 (13%) Frame = -1 Query: 60 FWFPP---GDINGREHHLHIIL 78 F+FP GD+ HH H++L Sbjct: 6136 FYFPGCDYGDLLQPWHHFHLLL 6071 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJE_ECOLI P75826 Uncharacterized protein ybjE (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +2 Query: 86 GLPWRNHHQ 94 G WRN H+ Sbjct: 3716 GCRWRNDHR 3742 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJG_ECOLI P75806 Putative undecaprenyl-diphosphatase ybjG (3.6.1.27) (Undecaprenyl pyrophosphate phosphatase) (198 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = +1 Query: 87 NIGYNFLHHAADDS 100 ++G NF+ + DD+ Sbjct: 121 SVGDNFILLSGDDA 162 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/21 (23%), Positives = 9/21 (42%) Frame = -1 Query: 116 FLCWHRLWSGSLLMVLAVVIA 136 F CWH ++ + I+ Sbjct: 4060 FTCWHNHFTDHFPTTEGLEIS 3998 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -2 Query: 97 ADDSFPSDH 105 DD+F DH Sbjct: 1887 TDDTFDRDH 1861 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJH_ECOLI P0AAY4 Uncharacterized protein ybjH (Precursor) (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJI_ECOLI P75809 Phosphatase ybjI (3.1.3.-) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +3 Query: 58 IANEIAFVAENGGWVVS 74 I + + F+A NGG + S Sbjct: 3 ITHRL*FIARNGGEISS 53 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +3 Query: 262 VLKHEAP 268 VLKHE P Sbjct: 4431 VLKHEVP 4451 Score = 16.9 bits (32), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -1 Query: 132 RLEYVDN 138 RLEYVD+ Sbjct: 1732 RLEYVDH 1712 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJJ_ECOLI P75810 Inner membrane protein ybjJ (402 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.060 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.060, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 1/24 (4%) Frame = +2 Query: 139 VLPMMHGFYSLGTLAGAG-VGMAL 161 +LP+ HG Y + ++ G VG L Sbjct: 659 ILPLQHGTYDIAQVSQQGAVGKQL 730 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJK_ECOLI P75811 Uncharacterized HTH-type transcriptional regulator ybjK (178 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.6, Method: Composition-based stats. Identities = 8/28 (28%), Positives = 15/28 (53%) Frame = +2 Query: 5 NDPQRREKIIQATLEAVKLYGIHAVTHR 32 N P +++ + + L AVK A+ +R Sbjct: 6161 NSPSQKQIVKKRGLLAVKAKESQALYNR 6244 Score = 15.4 bits (28), Expect = 7.6, Method: Compositional matrix adjust. Identities = 23/110 (20%), Positives = 47/110 (42%), Gaps = 3/110 (2%) Frame = +1 Query: 31 HRKIATLAGVPLGSM--TYYFSGIDELLLEAFSSFTEIMSRQYQAFFSDVSDAPGACQAI 88 H K L G P+G + T Y + + LL + I+ +Q + +D+ + GA + Sbjct: 2464 HNKEHFLCGDPIGRIGTTMYVTLLVFFLLISIGLIALIVLQQGKG--ADMGASFGAGAS- 2634 Query: 89 TDMIYSSQVATPDNMELMYQLYA-LASRKPLLKTVMQNWMQRSQQTLEQW 137 S+ + + M ++ A LA+ ++ V+ N + + +W Sbjct: 2635 -----STLFGSSGSGNFMTRMTAILATLFFIVSLVLGNMSSKQHRQSSEW 2769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJL_ECOLI P60869 Putative transport protein ybjL (561 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.3, Method: Compositional matrix adjust. Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 1/58 (1%) Frame = +1 Query: 175 IVGARYLPKLQHQDLQTSAQQIAR-ERGLDTDANRKVYLPVIRAYRVGPELVAWTDGK 231 IV + L Q D + A +R ++ + RK+ R ++ A +GK Sbjct: 5827 IVEKKKLTTQQQSDKTRREAEAAELKRSVEREVRRKIEEDAKRVAEEARKMAAENEGK 6000 Score = 17.7 bits (34), Expect = 5.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +2 Query: 372 GFISIHSQVTDLLAFC 387 F+SIHS + + C Sbjct: 2384 AFVSIHSVLNSIEVVC 2431 Score = 17.7 bits (34), Expect = 6.9, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +1 Query: 397 GMITFQFSTFSFGMGNAAGL 416 GMI +F+ F AAG+ Sbjct: 1744 GMINNKFNHFIMNRLEAAGI 1803 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJM_ECOLI P64439 Inner membrane protein ybjM (125 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.3, Method: Composition-based stats. Identities = 6/19 (31%), Positives = 12/19 (63%) Frame = +3 Query: 3 HKQRWAGAICCFVLFIVVC 21 +K++W I + + IV+C Sbjct: 1041 NKKKWLLRISRYNITIVLC 1097 Score = 15.0 bits (27), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 74 CSMLIMRLF 82 CS+L RLF Sbjct: 2827 CSVLEARLF 2801 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJN_ECOLI P0AAY6 Uncharacterized protein ybjN (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.4, Method: Compositional matrix adjust. Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 2/41 (4%) Frame = -3 Query: 97 PKLVVCQSLSVMQGVTYEQFAWFVRQ--SEEQISMVILEAN 135 PKL +SLS+ V F RQ E VIL +N Sbjct: 2261 PKLPRKRSLSIFSNV----FLSHKRQPSGENSSPKVILFSN 2151 Score = 15.8 bits (29), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%), Gaps = 2/15 (13%) Frame = -2 Query: 26 CDNC--QALHLPHMQ 38 C C + LHL H+Q Sbjct: 3789 CGYCLVRTLHLFHLQ 3745 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJO_ECOLI P0AAZ0 Inner membrane protein ybjO (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = +2 Query: 80 IWCAFSLVKGRRW 92 IWC S+ ++W Sbjct: 1673 IWCWSSVTIHQQW 1711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJP_ECOLI P75818 Uncharacterized lipoprotein ybjP (Precursor) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 76 SDASRDNNHR 85 SDA R+ HR Sbjct: 859 SDAKREPPHR 888 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJQ_ECOLI P0A8C1 UPF0145 protein ybjQ (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.6, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -2 Query: 73 GADAVVG 79 G+D V+G Sbjct: 6054 GSDMVIG 6034 Score = 14.2 bits (25), Expect = 9.9, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = +1 Query: 40 RDIVGGRSGAYEKELRK 56 R +GG AYE+ ++ Sbjct: 2248 RGNLGGVIEAYEQVAKR 2298 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJS_ECOLI P75821 Uncharacterized protein ybjS (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.50, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -2 Query: 63 MLAGIDTLWH 72 ML G+D LWH Sbjct: 6813 MLDGLDRLWH 6784 Score = 19.6 bits (39), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -1 Query: 194 LLPHGGSA 201 LLPHGGS Sbjct: 5890 LLPHGGSC 5867 Score = 16.9 bits (32), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 177 KVFIPRLAHMMH 188 ++ I LAH+MH Sbjct: 1394 RILI*DLAHLMH 1359 Score = 16.5 bits (31), Expect = 7.1, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = +3 Query: 97 LGEWAVAW 104 +G+W+V W Sbjct: 4020 VGKWSVKW 4043 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJT_ECOLI P75822 Uncharacterized protein ybjT (476 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.39, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 2/30 (6%) Frame = -2 Query: 239 TRWISVWFLNVITSVPPTTAR--ALIQGLK 266 T WISVWF+ + + R +++ GL Sbjct: 6885 TLWISVWFIYFVDNNDNGDFRCFSMLDGLD 6796 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -1 Query: 451 LMIPAHL 457 LMIP HL Sbjct: 3715 LMIPCHL 3695 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YBJX_ECOLI P75829 Uncharacterized protein ybjX (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 15/26 (57%) Frame = -2 Query: 45 PGKFWHRRSFRQKFLLRSLIMPRLSV 70 PG+ + R S ++ S ++PR ++ Sbjct: 4398 PGRMFSRGSISSCPIIPSALLPRSNI 4321 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAC_ECOLI P21367 Uncharacterized protein ycaC (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 148 RHSAWDRLSQ 157 + S W+ LSQ Sbjct: 2755 QSSEWENLSQ 2784 Score = 16.2 bits (30), Expect = 5.9, Method: Compositional matrix adjust. Identities = 13/51 (25%), Positives = 22/51 (43%), Gaps = 7/51 (13%) Frame = +1 Query: 118 CVAFPALSAIEEG-----FDVFVVTDASG--TFNEITRHSAWDRLSQAGAQ 161 C+ ++A E G + V +G TF + H+A+ + GAQ Sbjct: 6586 CIRSTKVAAGEAGGITQHIGAYHVETENGMVTFLDTPGHAAFTSMRARGAQ 6738 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAD_ECOLI P21503 Uncharacterized MFS-type transporter ycaD (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.33, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 10/11 (90%) Frame = +1 Query: 304 PVAMAWACEKV 314 P+A+ WAC+++ Sbjct: 340 PIAVKWACKRL 372 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 15/28 (53%) Frame = -1 Query: 36 EHMSTWQVGVVSSSYFTGNLVGTLLTGY 63 +H S + ++ GNL+ TLL GY Sbjct: 6988 DHQSLFPF*LIREQ--MGNLLPTLLAGY 6911 Score = 18.5 bits (36), Expect = 2.7, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 16/29 (55%) Frame = -3 Query: 217 GSLYGLMPLYLNHKGVSNASIGFWMAVLV 245 GS +GL L + + A++ WMA +V Sbjct: 6878 GSAFGLSILLITTTTGTFAALACWMASIV 6792 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAI_ECOLI P37443 Uncharacterized protein ycaI (754 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.27, Method: Compositional matrix adjust. Identities = 12/26 (46%), Positives = 16/26 (61%) Frame = -1 Query: 529 WPEGDSGQQLIIPWLHWHNLEPEGVI 554 +P D G L+ PW H+H L PE V+ Sbjct: 6130 FPGCDYGD-LLQPWHHFHLLLPERVV 6056 Score = 18.5 bits (36), Expect = 4.9, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%) Frame = +1 Query: 622 VVKVDDGTNSILLTGD 637 ++K G N ILL+GD Sbjct: 109 MIKPSVGDNFILLSGD 156 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAK_ECOLI P43340 Uncharacterized NAD(P)H oxidoreductase ycaK (1.6.99.-) (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.5, Method: Compositional matrix adjust. Identities = 9/36 (25%), Positives = 18/36 (50%) Frame = -1 Query: 73 LYSELLEHDTLVVVFPLWWYSFPAMLKGYIDRVWNN 108 L +LL + +F +W + FP G + + W++ Sbjct: 6193 LLHDLLLTRRVYCLFSVW*FYFPGCDYGDLLQPWHH 6086 Score = 16.5 bits (31), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 13/25 (52%) Frame = -2 Query: 86 VFPLWWYSFPAMLKGYIDRVWNNGL 110 +F L F + KG+ + +NG+ Sbjct: 2064 LFHLRQMRFTSPAKGFTVSLTDNGI 1990 Score = 16.2 bits (30), Expect = 5.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 96 AMLKGYIDRV 105 +KG+ DRV Sbjct: 757 GTIKGFPDRV 786 Score = 16.2 bits (30), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +3 Query: 124 RWVALVG 130 RW++LVG Sbjct: 2190 RWLSLVG 2210 Score = 15.4 bits (28), Expect = 8.8, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 15/34 (44%) Frame = -3 Query: 85 VVFPLWWYSFPAMLKGYIDRVWNNGLAYGDGHKL 118 V+ PL F A + +NGL G H+L Sbjct: 1028 VISPLKQADFLA-----VAH*SDNGLQRGHLHRL 942 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAL_ECOLI P43674 Uncharacterized metalloprotease ycaL (3.4.24.-) (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAM_ECOLI P75835 Inner membrane transporter ycaM (476 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -2 Query: 341 PVNGYFLTLVLVAIL 355 P+ L+LVL AIL Sbjct: 4617 PIGSIRLSLVLTAIL 4573 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 17/32 (53%) Frame = +1 Query: 106 QAILIALGWAMKGDGSLIKEYSVVALQGLTLV 137 +A IA+ WA K G + E + + LTLV Sbjct: 331 EANPIAVKWACKRLGLITAETLRLPMTSLTLV 426 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAN_ECOLI P75836 Uncharacterized HTH-type transcriptional regulator ycaN (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.36, Method: Compositional matrix adjust. Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 3/43 (6%) Frame = -2 Query: 180 PRHPHDLLNHQCVV-FRYPSGKPF--HWQFAKELEIAVAGNII 219 RH H + HQC F + + F H+ F+ +L + N++ Sbjct: 6513 TRHSHIAITHQCFFEFIFTTQDNFMTHF-FSNQLRCFLINNLV 6388 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 12/26 (46%) Frame = +3 Query: 52 RTTRSVSLTEAGSNLYERLRPAFDEI 77 R R V++ LYE P+F + Sbjct: 1179 RYKRHVTIALYPDLLYEHPTPSFGNV 1256 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 16/24 (66%) Frame = +1 Query: 124 VELTTDDSLVDIVQQGFDAGVRLS 147 E++T S+ ++QQ DAG++ S Sbjct: 5413 AEIST--SVDRLIQQFADAGLKKS 5478 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +3 Query: 8 FATFFAVARNQ 18 FA FF+ ARN+ Sbjct: 2427 FAIFFSDARNR 2459 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +1 Query: 48 RLFNRTT 54 RLF+RTT Sbjct: 559 RLFDRTT 579 Score = 16.5 bits (31), Expect = 7.0, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 50 FNRTTRSVSLTEAGSN 65 F TTR + ++ GSN Sbjct: 1636 FRDTTRLIFASQYGSN 1589 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -1 Query: 186 LLNHQC 191 LLNH C Sbjct: 4258 LLNHYC 4241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAO_ECOLI P75838 UPF0142 protein ycaO (586 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.86, Method: Compositional matrix adjust. Identities = 10/38 (26%), Positives = 17/38 (44%) Frame = -1 Query: 139 SMLIDLQSGNEDRGICGLPFTRQSDNQTVYIPMNIIGN 176 S + E RG+ L R+ N + +P+N+ N Sbjct: 3322 SHFFQITKNPETRGLIQLDPIRR*KNPSA*LPINVFSN 3209 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAP_ECOLI P75839 UPF0702 transmembrane protein ycaP (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = -3 Query: 170 KPGLLILPSDCTQRYKVVPESADYA 194 +P + LPS + V+P +A A Sbjct: 287 RPASVNLPSATR*QSSVIPPAATLA 213 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAQ_ECOLI P75843 Uncharacterized protein ycaQ (410 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCAR_ECOLI P0AAZ7 UPF0434 protein ycaR (60 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.3, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -2 Query: 12 PVCNGKL 18 P CNG++ Sbjct: 678 PCCNGRI 658 Score = 15.8 bits (29), Expect = 1.7, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -3 Query: 7 EIIACP 12 EII CP Sbjct: 206 EIIPCP 189 Score = 13.5 bits (23), Expect = 6.9, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 12/18 (66%), Gaps = 1/18 (5%) Frame = +2 Query: 43 PVLLETEARV-LTADESK 59 P++L +R+ TAD SK Sbjct: 752 PLVLLKGSRIESTADISK 805 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBB_ECOLI P22525 Uncharacterized protein ycbB (615 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +1 Query: 548 NDKRISDALK 557 N KR+ DALK Sbjct: 427 NQKRVEDALK 456 Score = 17.3 bits (33), Expect = 8.6, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 12/23 (52%) Frame = +2 Query: 29 QADEPEVIPGDSPVAVSEQGEAL 51 +ADE G ++V +QG L Sbjct: 941 RADEDVPFAGRYQISVQQQGNQL 1009 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBC_ECOLI P0AB01 Uncharacterized protein ycbC (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = +2 Query: 189 HLPRAMIFFQQEGLNPLPAPAN 210 H RAM+ EGL+ + + +N Sbjct: 1079 HYNRAMLNKLIEGLDKIRSNSN 1144 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = +1 Query: 177 GDAPFLLVTS 186 GD+PF+ V++ Sbjct: 6934 GDSPFVHVSA 6963 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBF_ECOLI P40876 Uncharacterized fimbrial chaperone ycbF (Precursor) (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBG_ECOLI P0A8N0 UPF0268 protein ycbG (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.31, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = +2 Query: 99 IVWQRLAGLAQRRGKTLSE 117 IVWQRL + G T+++ Sbjct: 1241 IVWQRLPPALAKIGMTVTK 1297 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBJ_ECOLI P0AB03 Uncharacterized protein ycbJ (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.37, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 12/18 (66%) Frame = +3 Query: 200 FCLRSMLKDSRSDQLLAM 217 FC+R +LK + LLA+ Sbjct: 4416 FCMRYVLKHEVPNYLLAV 4469 Score = 19.6 bits (39), Expect = 0.88, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 12/24 (50%) Frame = +2 Query: 235 LMDNSLAEDLLWSYLQRAPVAESF 258 L+DN+ D LWS + ES Sbjct: 809 LLDNNRQNDTLWSQITTVMQNESL 880 Score = 19.2 bits (38), Expect = 0.98, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +1 Query: 185 LFEGFNDNCVLI 196 LF+G N +CV I Sbjct: 3445 LFQGANPHCVFI 3480 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBK_ECOLI P0AB06 Uncharacterized protein ycbK (Precursor) (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.46, Method: Compositional matrix adjust. Identities = 9/11 (81%), Positives = 9/11 (81%) Frame = +3 Query: 144 EGIALSNIRKA 154 E ALSNIRKA Sbjct: 3762 EVFALSNIRKA 3794 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +2 Query: 102 RKPVQLISGYRSIDTNNEL 120 R PV+ ++ Y+ NEL Sbjct: 5600 RAPVEKVNRYKLKFVENEL 5656 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBL_ECOLI P75849 Uncharacterized protein ycbL (3.-.-.-) (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.68, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 10/20 (50%) Frame = -3 Query: 57 GHLDHVGAAAELAQHYGVPV 76 GH DH A Q+Y PV Sbjct: 5102 GH-DHAALEASFCQNYQFPV 5046 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBQ_ECOLI P75855 Uncharacterized fimbrial-like protein ycbQ (Precursor) (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.26, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 10/19 (52%) Frame = -1 Query: 8 AFITVVCATSSVMAADDNA 26 AFIT+ C TS NA Sbjct: 589 AFITLFCRTSG*QHQPQNA 533 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBR_ECOLI P75856 Uncharacterized fimbrial chaperone ycbR (Precursor) (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 15/55 (27%), Positives = 22/55 (40%) Frame = +1 Query: 77 DFIITPPLFVLNPANENLLRIMYIGAPLAKDRETLFFTSVRAVPSTTKRKEGNTL 131 D+ +T +EN A + DR + S TTK+K+GN L Sbjct: 6037 DYHVTTSQHARAAEDEN-------DAKVEGDRRSRSRGS-----KTTKQKKGNKL 6165 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBS_ECOLI P75857 Uncharacterized outer membrane usher protein ycbS (Precursor) (866 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.94 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.94, Method: Compositional matrix adjust. Identities = 26/108 (24%), Positives = 46/108 (42%) Frame = +1 Query: 127 PLAEIIPDASVTFNVNKLRLEISVPQIAIKSNARGYVPPERWDEGINALLLGYSFSGANS 186 P+ I VT V L + I + + + +G + G ++ L G S G+ + Sbjct: 2494 PIGRIGTTMYVTLLVFFLLISIGLIALIVLQQGKGADMGASFGAGASSTLFGSS--GSGN 2667 Query: 187 IHSSADSDSGDSYFLNLNSGVNLGPWRLRNNSTWSRSSGQTAEWKNLS 234 + + +F+ V+L L N S S+ Q++EW+NLS Sbjct: 2668 FMTRMTAILATLFFI-----VSL---VLGNMS--SKQHRQSSEWENLS 2781 Score = 20.4 bits (41), Expect = 1.5, Method: Compositional matrix adjust. Identities = 11/38 (28%), Positives = 19/38 (50%) Frame = -2 Query: 496 DTPMWSRYYNLFYTKRGKLQVNISQQLGEYGSFYLSGS 533 +T + S + + +T I LGE+ +F+L GS Sbjct: 6249 ETLL*SAWLSFAFTANSPRFFTICF*LGEFIAFFLFGS 6136 Score = 19.2 bits (38), Expect = 3.7, Method: Compositional matrix adjust. Identities = 13/36 (36%), Positives = 17/36 (47%) Frame = -1 Query: 421 FGAISFDATQAKSTLADQSEHKGQSYRFLYAKTLNH 456 FG I+ A ST D ++ FL+ K LNH Sbjct: 4348 FGVIT*V*YNALST--DFFNGSCNNFPFLFTKLLNH 4247 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBT_ECOLI P75858 Uncharacterized fimbrial-like protein ycbT (Precursor) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBU_ECOLI P75859 Uncharacterized fimbrial-like protein ycbU (Precursor) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 4 KTIFQCVILFFSIL 17 T F C +L FS+ Sbjct: 5726 STCFACSVLAFSVF 5685 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBV_ECOLI P75860 Uncharacterized fimbrial-like protein ycbV (Precursor) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBW_ECOLI P75862 Uncharacterized protein ycbW (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 170 NVDSFSLE 177 +VDSFSL Sbjct: 1656 SVDSFSLS 1633 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCBX_ECOLI P75863 Uncharacterized protein ycbX (369 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.32, Method: Compositional matrix adjust. Identities = 17/46 (36%), Positives = 19/46 (41%), Gaps = 2/46 (4%) Frame = -3 Query: 215 EKGQKHPAGEPLKTL--QSFRTAQDNGDVDFGQNLIARNSGVIRVG 258 ++GQ HP G K L QSF F N RNSG G Sbjct: 3374 QRGQTHPQGIKKKGLIAQSF----------FSNNKKPRNSGFDTTG 3267 Score = 16.9 bits (32), Expect = 7.3, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 4/28 (14%) Frame = +2 Query: 322 SCRAGICGSCRVQLLE----GEVTPLKK 345 SCR + + RVQL + G LKK Sbjct: 3233 SCRGILSAANRVQLYQTPSFGVFCYLKK 3316 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCA_ECOLI P0AAC6 Inner membrane protein yccA (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCB_ECOLI P24244 Uncharacterized protein yccB (30 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 0.88 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 0.88, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 25 DPRLKS 30 DP+LKS Sbjct: 1376 DPKLKS 1393 Score = 14.6 bits (26), Expect = 2.9, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 1 MWYLLWFV 8 +W+L WF+ Sbjct: 5556 IWHLTWFM 5533 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCE_ECOLI P36661 Uncharacterized protein yccE (ORF-D) (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.43, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 1/33 (3%) Frame = -3 Query: 273 DLQSDNQIQGQSSLMS-WSFLFFKKQFIDSCLN 304 DL D++ G S S W F+ +F D CL Sbjct: 908 DLHPDDRRWGGSRFASLW*FVTIMYRFDDYCLT 810 Score = 17.3 bits (33), Expect = 6.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +3 Query: 143 YIENINACDDVFSEYCFD 160 YI+N CD V + C D Sbjct: 3477 YIDN---CDGVTVDMCAD 3521 Score = 16.9 bits (32), Expect = 7.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 162 ENISVQP 168 +N+SVQP Sbjct: 5911 QNVSVQP 5891 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCF_ECOLI P0AB12 Inner membrane protein yccF (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 6/12 (50%) Frame = +3 Query: 86 FGWWLCLMHIAT 97 F W C IAT Sbjct: 2553 FDWTYCAYRIAT 2588 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCJ_ECOLI P0AB14 Uncharacterized protein yccJ (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCM_ECOLI P52636 Putative electron transport protein yccM (357 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -3 Query: 284 CVESCPVAST 293 C++S PVAS+ Sbjct: 182 CIKSKPVASS 153 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCS_ECOLI P75870 Inner membrane protein yccS (717 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCT_ECOLI P0A8X4 UPF0319 protein yccT (Precursor) (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCCU_ECOLI P75874 Uncharacterized protein yccU (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.54 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.54, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 8/8 (100%) Frame = -2 Query: 110 AVLARDAG 117 A+LARDAG Sbjct: 4581 AILARDAG 4558 Score = 18.1 bits (35), Expect = 0.84, Method: Composition-based stats. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -3 Query: 24 KPDRPSYRVMKYLLDQGYH 42 + D P+YR L+ YH Sbjct: 5252 RQDLPAYRPRTLLI*MPYH 5196 Score = 15.4 bits (28), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +2 Query: 47 SPKVAGKT 54 +PKVAG Sbjct: 3110 NPKVAGSN 3133 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCDB_ECOLI P31545 Peroxidase ycdB (1.11.1.-) (Precursor) (423 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.9, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 370 CYQHDLEKGFLT 381 C++ DL FLT Sbjct: 2254 CHESDLYPSFLT 2219 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCDO_ECOLI P0AB24 UPF0409 protein ycdO (Precursor) (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +3 Query: 331 LAKYRTKDG 339 L ++RT+DG Sbjct: 3057 LLRFRTRDG 3083 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCDT_ECOLI P75908 Inner membrane protein ycdT (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +1 Query: 384 ENVERLTGDNP 394 + + +TGDNP Sbjct: 631 KKAQCITGDNP 663 Score = 16.9 bits (32), Expect = 7.3, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +3 Query: 60 FMQLYFIYDR 69 F QLY YDR Sbjct: 2658 FRQLYDPYDR 2687 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCDU_ECOLI P75910 Uncharacterized protein ycdU (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -2 Query: 283 RIWFEAYFLL 292 R W AYFL+ Sbjct: 2823 RFWRRAYFLI 2794 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCDX_ECOLI P75914 Putative hydrolase ycdX (3.1.-.-) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 8/18 (44%) Frame = +3 Query: 165 SRKGSEDNCREVAAAVRD 182 SRK D C A RD Sbjct: 5367 SRKEQHDRCNHKVAGSRD 5420 Score = 15.8 bits (29), Expect = 8.5, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = -1 Query: 41 GPDMEDAPHHWHFINMRIWPRVV 63 G D D WH ++ + RVV Sbjct: 6124 GCDYGDLLQPWHHFHLLLPERVV 6056 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCDY_ECOLI P75915 Uncharacterized protein ycdY (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = -2 Query: 46 ELLTRLQKSCDMTQVSADYNAL 67 +LTR SC + A NA+ Sbjct: 3987 SILTRTSISCSCFFLVAVANAI 3922 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCDZ_ECOLI P75916 Inner membrane protein ycdZ (163 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -1 Query: 26 GLLSWAGFLGCTAYF 40 LL+W GFL ++ Sbjct: 3907 NLLTWKGFLIRNGFY 3863 Score = 16.2 bits (30), Expect = 4.2, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 8/13 (61%) Frame = +1 Query: 125 LPSLALGLIFGYA 137 LPSL G GYA Sbjct: 4012 LPSLESGQ*SGYA 4050 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEA_ECOLI P24188 UPF0176 protein yceA (ORF39.9) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = +3 Query: 145 LDDPDALFIDMRNHYEYEV 163 +D+ D + +DM Y+V Sbjct: 3480 IDNCDGVTVDMCADVSYQV 3536 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEB_ECOLI P0AB26 Uncharacterized lipoprotein yceB (Precursor) (186 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCED_ECOLI P0AB28 Uncharacterized protein yceD (G30K) (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.93, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +1 Query: 151 FGELPEEAQKPNPFAVLASLK 171 G LPEE +PF +++ K Sbjct: 6907 HGILPEEWGGDSPFVHVSAKK 6969 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -3 Query: 1 MQKVKLPLTLDPVR 14 ++ +KLP LDP R Sbjct: 2681 IRVIKLPEPLDPNR 2640 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEF_ECOLI P0A729 Maf-like protein yceF (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.11, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = -3 Query: 121 EPFDVHFRHLSEAEIDNYV 139 E VHF H +++ + NY+ Sbjct: 4859 EKLSVHFDHCAQSLVQNYL 4803 Score = 17.3 bits (33), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = -2 Query: 57 ASRYPDHLIIGSDQVCVLDGEITGK 81 A R P H IGS ++ ++ I + Sbjct: 4641 APRIPTHAPIGSIRLSLVLTAILAR 4567 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEG_ECOLI P28306 Uncharacterized protein yceG (340 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 4/87 (4%) Frame = +2 Query: 132 YIKHTLSDDKYATVAQALELENPEWIEGWFWPDTWMYTANTTDVALLK----RAHKKMVK 187 +I+H D++ ATV E + E E + P++ + ++ D L+ RA + Sbjct: 4946 FIEHLEIDEECATVLVEAEFSSLE--ELAYVPESELPEIDSFDKKRLQELRDRAQNVLTT 5119 Query: 188 AVDSAWEGRADGLPYKDKNQLVTMASI 214 E D P D L+ +AS+ Sbjct: 5120 LALKKEESFGDNKPADD---LLNLASL 5191 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEH_ECOLI P29217 UPF0502 protein yceH (G20.3) (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%) Frame = +2 Query: 25 EQYPLSVNGVVTACNQKTNREPVM 48 EQ+ +VTA +K +RE ++ Sbjct: 4253 EQFREQEGKIVTATVKKVSRESII 4324 Score = 16.9 bits (32), Expect = 3.9, Method: Compositional matrix adjust. Identities = 9/39 (23%), Positives = 18/39 (46%) Frame = +1 Query: 124 MYEFSDMAEVESTLEQLANREDGPFVVRLAREPGKRENR 162 + +F+D +S + +E + L EPG+ N+ Sbjct: 5443 IQQFADAGLKKSETSSVTQQEKEILLAHLKHEPGQVPNK 5559 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEI_ECOLI P0A8X2 Protein yceI (Precursor) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 16/29 (55%) Frame = -2 Query: 130 VTKPVTLEAKLIGQGDDPWGGKRAGFEAE 158 + + + KLI QGD + K+A F+ E Sbjct: 2211 IPQATAIGGKLITQGDFIF--KQAKFQFE 2131 Score = 16.2 bits (30), Expect = 5.6, Method: Composition-based stats. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -2 Query: 163 LKDFNIKTDLGPASQEVDLI 182 L DFN+ + ASQ LI Sbjct: 1398 LPDFNLGSCAPNASQSRLLI 1339 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEK_ECOLI P0AB31 Uncharacterized protein yceK (Precursor) (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.7, Method: Compositional matrix adjust. Identities = 5/20 (25%), Positives = 9/20 (45%) Frame = -1 Query: 33 YYPGVQWDVRDSAWRYVTIL 52 Y+PG + W + +L Sbjct: 6133 YFPGCDYGDLLQPWHHFHLL 6074 Score = 13.9 bits (24), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 44 SAWRYVTIL 52 S W +VTI+ Sbjct: 863 SLW*FVTIM 837 Score = 13.9 bits (24), Expect = 8.9, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +3 Query: 6 VSIMVTLLSGCG 17 VSI+ + GCG Sbjct: 4602 VSIL*GHVLGCG 4637 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEO_ECOLI P64442 Uncharacterized protein yceO (46 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCEQ_ECOLI P62066 Uncharacterized protein yceQ (106 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.14, Method: Composition-based stats. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = -1 Query: 22 YSPEIFPSTGKDCNPQPANC 41 +SP++ + C+P P C Sbjct: 4678 FSPQLVRHSLNTCSPHPNTC 4619 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFC_ECOLI P25746 UPF0274 protein ycfC (ORF-23) (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.032 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.032, Method: Compositional matrix adjust. Identities = 11/20 (55%), Positives = 13/20 (65%) Frame = +3 Query: 95 LERKLSSAKGALDTLGNRIN 114 LER L +A+ D LG RIN Sbjct: 3603 LERLLFTAEDYTDYLGERIN 3662 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFD_ECOLI P27431 Uncharacterized protein ycfD (373 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.76, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 15/33 (45%) Frame = +2 Query: 177 DILYIPPGFPHEGYALENAMNYSVGFRAPNTRE 209 ++LY PP P + ++ + F P R+ Sbjct: 6515 NLLYAPPSSPSWVMLIMVRLHCLIAFVRPKLRQ 6613 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = -1 Query: 106 WRIDDLMISFSV 117 +RID L++SF+ Sbjct: 4615 YRIDTLVVSFNC 4580 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 3/21 (14%) Frame = -1 Query: 276 RHELDIAPPEP---PYQPDEI 293 RH L+ P P PY+ D + Sbjct: 4660 RHSLNTCSPHPNTCPYRIDTL 4598 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 277 HELDIAPPEPP 287 +LDI PP P Sbjct: 722 KQLDIRPPIQP 754 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFH_ECOLI P0AFQ7 Uncharacterized deoxyribonuclease ycfH (3.1.21.-) (265 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.14, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -3 Query: 64 CGVHPLNQNDPY 75 CG+ P N+ DPY Sbjct: 3467 CGLAPWNKFDPY 3432 Score = 20.8 bits (42), Expect = 0.29, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 14/28 (50%) Frame = +2 Query: 238 AVEELAQVTTDNFARLFHIDASRLQSIR 265 ++EELA V + D RLQ +R Sbjct: 5009 SLEELAYVPESELPEIDSFDKKRLQELR 5092 Score = 16.5 bits (31), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 153 VLHCFT 158 VLHC+T Sbjct: 3689 VLHCYT 3672 Score = 15.8 bits (29), Expect = 9.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 5/9 (55%) Frame = -1 Query: 67 HPLNQNDPY 75 HPL PY Sbjct: 2629 HPLQMKRPY 2603 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFJ_ECOLI P0AB35 Uncharacterized protein ycfJ (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 12/20 (60%) Frame = +3 Query: 68 ENRITGSVLGAVAGGVIGHQ 87 +NR+T L A++ VIG Sbjct: 1305 DNRVTLL*LIALSTAVIGMH 1364 Score = 16.2 bits (30), Expect = 4.7, Method: Compositional matrix adjust. Identities = 12/49 (24%), Positives = 24/49 (48%) Frame = +2 Query: 107 YAGNQIQGSLQESDTYTTTQQRCKTVYDKSEKMLGYDVTYKIGDQQGKI 155 Y +QI+ + + T T +Q ++E+ + V + +Q+GKI Sbjct: 4145 YIEDQIKSVVFDRITTQTAKQVIVQKVREAERAV---VIEQFREQEGKI 4282 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFK_ECOLI P45581 Uncharacterized protein ycfK (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.9, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 18/29 (62%) Frame = +2 Query: 32 ATDLDDDYFDMLQEELCSVVEASGASLEK 60 A D+ ++ ++ +E +VEA +SLE+ Sbjct: 4934 AIDMFIEHLEIDEECATVLVEAEFSSLEE 5020 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFL_ECOLI P75946 Uncharacterized protein ycfL (125 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.5, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -3 Query: 18 GCRSHP 23 GC++HP Sbjct: 1430 GCQNHP 1413 Score = 14.6 bits (26), Expect = 8.8, Method: Composition-based stats. Identities = 4/16 (25%), Positives = 12/16 (75%) Frame = +2 Query: 24 EIPVNDEQSLVMESSL 39 E+P DE+ + +++++ Sbjct: 4505 EVPEIDEELIEIKAAI 4552 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFM_ECOLI P0AB38 Uncharacterized protein ycfM (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = +3 Query: 7 YALITALAMF 16 YAL+TAL +F Sbjct: 4389 YALVTALEVF 4418 Score = 16.5 bits (31), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 108 VNNRTNGSL 116 + NRT GSL Sbjct: 1882 IRNRTAGSL 1908 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFP_ECOLI P0A8E1 UPF0227 protein ycfP (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = -3 Query: 170 LQRIKAFKTLG 180 L RIK TLG Sbjct: 149 LSRIKLSPTLG 117 Score = 15.8 bits (29), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 10 SNSPGNHEK 18 +NSP H+K Sbjct: 3366 TNSPPRHKK 3340 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFQ_ECOLI P75952 Uncharacterized HTH-type transcriptional regulator ycfQ (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.98, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 94 ESALADYFAAIANCF 108 SALA +F+ + CF Sbjct: 5759 SSALAGFFSTCSTCF 5715 Score = 16.5 bits (31), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -2 Query: 117 CFMINN 122 CF+INN Sbjct: 6411 CFLINN 6394 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFS_ECOLI P75954 Uncharacterized protein ycfS (Precursor) (320 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFT_ECOLI P75955 Inner membrane protein ycfT (357 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 24/47 (51%), Gaps = 2/47 (4%) Frame = -1 Query: 274 GSNTIAIYTTHRILVEIFSL--TLLAQMNAARWSPQVELTLLLVYPF 318 GSN++ I+ + + F L +L Q +A + ++ L L+ PF Sbjct: 1597 GSNSVIIFDSRLKKITAFFLFCIILIQCSA*HRNQRIILLLI*CMPF 1457 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCFZ_ECOLI P75961 Inner membrane protein ycfZ (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +1 Query: 41 AEEIAHKAELFRQ 53 AEE+ HK L R+ Sbjct: 6424 AEEMGHKVILRRE 6462 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGB_ECOLI P29013 Uncharacterized protein ycgB (510 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGE_ECOLI P75989 Uncharacterized HTH-type transcriptional regulator ycgE (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +2 Query: 187 LSGWHISVL 195 LSGW ++V+ Sbjct: 4862 LSGWELNVM 4888 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGF_ECOLI P75990 Uncharacterized protein ycgF (403 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.19, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 17/32 (53%) Frame = -1 Query: 235 GDKMISINLLPMTLVNEPDAVSFLLNEIKANA 266 GD++ +LLP TL SFLL ++ A Sbjct: 5440 GDQLKLRSLLPATLWLHLSCCSFLLQLLRIIA 5345 Score = 20.8 bits (42), Expect = 0.46, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -1 Query: 45 SHFFQLLEGPE 55 SHFFQ+ + PE Sbjct: 3322 SHFFQITKNPE 3290 Score = 20.0 bits (40), Expect = 0.76, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 12/26 (46%) Frame = +2 Query: 123 DRALQFFRTFVLATEQSTYFEIPAED 148 DRA T L E+S PA+D Sbjct: 5093 DRAQNVLTTLALKKEESFGDNKPADD 5170 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGG_ECOLI P75995 Uncharacterized protein ycgG (507 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 12/18 (66%) Frame = -1 Query: 310 VPLTQSLMNQVARQMNAI 327 VPL + + ++A +NAI Sbjct: 2464 VPLFLASLKKIANNLNAI 2411 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -2 Query: 472 QNYITFQQGYYFYKPV 487 QN I G+Y KP+ Sbjct: 144 QNKIITNAGFYHAKPL 97 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGI_ECOLI P76000 Putative uncharacterized protein ycgI (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.72, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -1 Query: 6 LRCLFRMNPLVW 17 LRCL + P VW Sbjct: 1840 LRCLKAVVPFVW 1805 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +3 Query: 76 AAVRKEFVDDNRVK 89 A RKE +DD+ K Sbjct: 5823 ADCRKEKIDDSTTK 5864 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGJ_ECOLI P76001 Uncharacterized protein ycgJ (Precursor) (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGK_ECOLI P76002 Uncharacterized protein ycgK (Precursor) (133 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGL_ECOLI P0AB43 UPF0745 protein ycgL (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGM_ECOLI P76004 Uncharacterized protein ycgM (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -1 Query: 10 ALLDYPVSKVV 20 ALL PVS+++ Sbjct: 5971 ALLQQPVSRLL 5939 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGN_ECOLI P0A8L5 UPF0260 protein ycgN (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.23, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = -1 Query: 80 KLTRENLPTFEWLPMTCAYRL 100 +L R +L T P TC YR+ Sbjct: 4669 QLVRHSLNTCSPHPNTCPYRI 4607 Score = 16.9 bits (32), Expect = 2.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 93 PMTCAYRL 100 P+TC Y L Sbjct: 3561 PITCPYNL 3584 Score = 16.5 bits (31), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 9/21 (42%), Gaps = 2/21 (9%) Frame = +2 Query: 11 FWQ--SKTLDEMSDAEWESLC 29 FW + SDA W SL Sbjct: 3032 FWMMINVLFATFSDAGWSSLV 3094 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGR_ECOLI P76010 Uncharacterized protein ycgR (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGV_ECOLI P76017 Uncharacterized protein ycgV (955 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGX_ECOLI P75988 Uncharacterized protein ycgX (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.5, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 76 EAALLHICG 84 EA +LH CG Sbjct: 880 EALVLHHCG 854 Score = 16.9 bits (32), Expect = 1.9, Method: Composition-based stats. Identities = 11/30 (36%), Positives = 15/30 (50%) Frame = -3 Query: 64 KVSTTKNPAKIKEAALLHICGKSTFREYCS 93 KVS NP+++ +A L I S CS Sbjct: 395 KVSAVINPSRL-QAHLTAIGLASINNSLCS 309 Score = 16.9 bits (32), Expect = 2.1, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 27 LKHHRIAHYIYYL 39 + HH A Y+Y L Sbjct: 3049 VDHHPKASYLYEL 3011 Score = 14.6 bits (26), Expect = 9.8, Method: Composition-based stats. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = -3 Query: 34 HYIYY 38 HY YY Sbjct: 1148 HYCYY 1134 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGY_ECOLI P76012 Uncharacterized protein ycgY (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.93, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 14/23 (60%) Frame = +2 Query: 23 AVLAALIEHLELINPSGRLSQNT 45 A+L LIE L+ I + +QNT Sbjct: 1091 AMLNKLIEGLDKIRSNSNNAQNT 1159 Score = 15.8 bits (29), Expect = 5.0, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 8/19 (42%) Frame = -3 Query: 119 RRNDAIFGNHVWQTFAQYF 137 R N A F +W YF Sbjct: 1631 RYNSANFCISIWLQ*CDYF 1575 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCGZ_ECOLI P75991 Uncharacterized protein ycgZ (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHE_ECOLI P25743 UPF0056 membrane protein yhcE (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 119 GVVPLALPLMAGPG 132 G + +PLM PG Sbjct: 4434 GRISYKIPLMRSPG 4393 Score = 16.9 bits (32), Expect = 3.3, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 12/26 (46%) Frame = -1 Query: 58 LWISLFLGDTILQLFGISIDSFRIAG 83 LW+ L +LQL I IAG Sbjct: 5401 LWLHLSCCSFLLQLLRIIAKPADIAG 5324 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHG_ECOLI P30192 Putative uncharacterized protein ychG (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHH_ECOLI P0AB49 Uncharacterized protein ychH (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.6, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +2 Query: 52 VGAILWLAGARV 63 +GA + + GARV Sbjct: 4613 IGACVGMRGARV 4648 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHJ_ECOLI P37052 UPF0225 protein ychJ (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.62, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -3 Query: 13 YSLCCHPYVSGEKVAPDPEH 32 + H + S ++VAP P H Sbjct: 1547 FLFILHHFDSMQRVAPQPAH 1488 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHM_ECOLI P0AFR2 Putative sulfate transporter ychM (559 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -1 Query: 197 VFWPRLGIRLPGHLP 211 V WPR + P H P Sbjct: 6811 VGWPRSSVA*PHHRP 6767 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHN_ECOLI P0AB52 Protein ychN (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.7, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 106 QWTLSADKVL 115 QWTLS + ++ Sbjct: 791 QWTLSGNPLI 762 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHO_ECOLI P39165 Uncharacterized protein ychO (Precursor) (464 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.16, Method: Compositional matrix adjust. Identities = 21/67 (31%), Positives = 27/67 (40%) Frame = +2 Query: 96 QQVNQHVESWLSPWGNASVDVKVDNEGHFTGSRGSWFVPLQDNDRYLTWSQLGLTQQDNG 155 Q NQ + + W A DV F G R V Q N L LGL QQ+ Sbjct: 896 QDANQTLTTDWIKWNRADEDVP------FAG-RYQISVQQQGNQLALVVKSLGLQQQEKM 1054 Query: 156 LVSNVGV 162 + SN+ + Sbjct: 1055VTSNIEI 1075 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCHS_ECOLI P76023 Putative uncharacterized protein ychS (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.20, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 13/24 (54%) Frame = -3 Query: 1 MVVGEGLLSAARFALRVVACGNAL 24 + V + A FAL + AC +AL Sbjct: 5819 LFVSAIFFALASFALSLFACSSAL 5748 Score = 19.2 bits (38), Expect = 0.22, Method: Composition-based stats. Identities = 13/41 (31%), Positives = 18/41 (43%) Frame = -1 Query: 10 AARFALRVVACGNALSLALKSNLGRSFSSFPAWAEYLIADS 50 ARFALR++ N SSFP+ +I+ S Sbjct: 3805 GARFALRILLSANT-------------SSFPSTVTMIISPS 3722 Score = 13.9 bits (24), Expect = 9.5, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -3 Query: 78 CLRQRSLADARA 89 C R SLA +A Sbjct: 2054 CARCASLAQPKA 2019 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIA_ECOLI P0A8Z0 Acyl-CoA thioester hydrolase yciA (3.1.2.-) (Protein P14) (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +2 Query: 94 VWVKKVASEPIGQRYK 109 +W+ +A+ QRYK Sbjct: 539 LWLMLLAACSTEQRYK 586 Score = 15.0 bits (27), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 34 LMSQMDIG 41 LMS D+G Sbjct: 6481 LMSDRDMG 6504 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIC_ECOLI P21365 UPF0259 membrane protein yciC (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 11/61 (18%) Frame = -2 Query: 14 NFFRNQFMTILLVSLLCAFITVVLGHVFSPSDAQLAQL-----------NDGVPVSGSSG 62 +FF NQ L+ +L+ T H F+ A ND V V S+ Sbjct: 6435 HFFSNQLRCFLINNLVDCCHTT*FHHCFNDLRAFNCHFIR*FSNGDRFTNDNVAVDYSNW 6256 Query: 63 L 63 L Sbjct: 6255 L 6253 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIE_ECOLI P21363 Protein yciE (168 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 102 VFEQFEIACYTS 113 +FE EIA T+ Sbjct: 3905 IFEALEIALATA 3940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIF_ECOLI P21362 Protein yciF (166 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +3 Query: 51 THGQIERIDQV 61 TH + RID++ Sbjct: 6009 THSRTNRIDRL 6041 Score = 16.2 bits (30), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 46 AHLEETHGQI 55 AHL+ GQ+ Sbjct: 5521 AHLKHEPGQV 5550 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIG_ECOLI P21361 Uncharacterized protein yciG (59 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 0.76, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +1 Query: 14 DREKASDAGRKG 25 DRE+A GRK Sbjct: 6181 DREEARAVGRKS 6216 Score = 14.6 bits (26), Expect = 2.9, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +2 Query: 28 HSGGNFKND 36 H G ++ND Sbjct: 3710 HQGCRWRND 3736 Score = 13.5 bits (23), Expect = 7.9, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +3 Query: 30 GGNFKNDPQ 38 GG ++PQ Sbjct: 36 GGEISSNPQ 62 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIH_ECOLI P08245 Uncharacterized protein yciH (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCII_ECOLI P0AB55 Protein yciI (98 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.9, Method: Composition-based stats. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = +2 Query: 61 VIAEFESLE 69 V AEF SLE Sbjct: 4991 VEAEFSSLE 5017 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIK_ECOLI P31808 Uncharacterized oxidoreductase yciK (1.-.-.-) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -1 Query: 187 LRVNCINPGGTRTAMRAS 204 L + +NP +R RAS Sbjct: 484 LAIKIVNPHFSRHPRRAS 431 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIM_ECOLI P0AB58 Uncharacterized protein yciM (Precursor) (389 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.73 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.73, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%) Frame = +3 Query: 339 MVLRDMVGEKVRSKPRYRC-QKCGFT 363 + L D + S+ R C +KCGFT Sbjct: 393 LTLTDDIANPC*SEARRGCLEKCGFT 470 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIN_ECOLI P0AB61 Protein yciN (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIO_ECOLI P0AFR4 Uncharacterized protein yciO (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIQ_ECOLI P45848 Uncharacterized protein yciQ (631 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 13/20 (65%) Frame = +2 Query: 258 LVCGWLYLWKRRPQFTPVDV 277 +V W Y +K RP++ +++ Sbjct: 2966 VVLDWAYGFKSRPRYQFIEI 3025 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIS_ECOLI P0ACV4 Inner membrane protein yciS (102 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 4.9, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +2 Query: 44 LLAVLFAAGFAIGW 57 ++ VLFA GW Sbjct: 3041 MINVLFATFSDAGW 3082 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIT_ECOLI P76034 Uncharacterized HTH-type transcriptional regulator yciT (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIU_ECOLI P0A8L7 UPF0263 protein yciU (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.52, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = +3 Query: 92 ILLCREKDHKLCHIIWRE 109 +L C E KLC W E Sbjct: 4623 VLGCGEHVFKLCLTSWGE 4676 Score = 18.1 bits (35), Expect = 0.68, Method: Composition-based stats. Identities = 8/29 (27%), Positives = 15/29 (51%) Frame = +3 Query: 38 FNLQFEERGGAELFDPAEDWQEHVDFDLN 66 +NL+ G L AED+ +++ +N Sbjct: 3576 YNLEVSSPGLERLLFTAEDYTDYLGERIN 3662 Score = 15.8 bits (29), Expect = 3.2, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 64 DLNPDF 69 D+NPDF Sbjct: 3985 DINPDF 3968 Score = 15.0 bits (27), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 63 FDLNPD 68 FDL+PD Sbjct: 911 FDLHPD 894 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIW_ECOLI P76035 Uncharacterized protein yciW (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 276 NGSPACFATC 285 NG+P ATC Sbjct: 2312 NGTPIRLATC 2283 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIX_ECOLI P58094 Uncharacterized protein yciX (55 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIY_ECOLI A5A613 Uncharacterized protein yciY (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +1 Query: 37 SIRKCILNKQR 47 SIR CI + + Sbjct: 3913 SIRNCISDSDQ 3945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCIZ_ECOLI A5A614 UPF0509 protein yciZ (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.47, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = +2 Query: 10 AERIDIVL 17 ERIDIVL Sbjct: 4673 GERIDIVL 4696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJD_ECOLI P45736 Uncharacterized protein ycjD (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.4, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 6/11 (54%) Frame = -1 Query: 40 QHPVGSYILDF 50 HP SY+ + Sbjct: 3043 HHPKASYLYEL 3011 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJF_ECOLI P0A8R7 UPF0283 membrane protein ycjF (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +2 Query: 175 YASIHETQNDREVV 188 + SIH N EVV Sbjct: 2387 FVSIHSVLNSIEVV 2428 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 12/38 (31%), Positives = 19/38 (50%) Frame = -3 Query: 234 RNLRLINRIATLYGIELGYYSRLRLFKLVLLNIAFAGA 271 R LR+ L+ ELG + LR+F+ N++ G Sbjct: 5651 RFLRISICTDLLFPPELGTFKVLRIFR---CNVSLFGT 5547 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +3 Query: 61 RPKRSLWRKMVMGGLALF 78 +P LW+ + GLA+ Sbjct: 5301 KPVN*LWQPAISAGLAIM 5354 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJG_ECOLI P51981 Uncharacterized protein ycjG (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJN_ECOLI P76042 Putative ABC transporter periplasmic-binding protein ycjN (Precursor) (430 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJO_ECOLI P0AFR7 Inner membrane ABC transporter permease protein ycjO (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.38, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 16/31 (51%) Frame = +2 Query: 135 YGIVNYLGVDLLHLYEQAPLWFDNPGSSFVL 165 + N LG + + + LW DNP + FVL Sbjct: 4649 QAVSNELGGERIDIV----LWDDNP-AQFVL 4726 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = -1 Query: 31 WPMVSNIEISFLRLPLNPN 49 +P +EIS + +NP+ Sbjct: 4027 FPTTEGLEISCFSIDINPD 3971 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 10/30 (33%) Frame = -2 Query: 64 LSDPGFWH----------SLWMTVWYTALV 83 +S P FW +LW++VW+ V Sbjct: 6939 ISSPLFWQDTVLR*FCSKTLWISVWFIYFV 6850 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJP_ECOLI P77716 Inner membrane ABC transporter permease protein ycjP (280 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 4/15 (26%), Positives = 10/15 (66%) Frame = -2 Query: 245 GRMMAASLVTALPVV 259 GRM + +++ P++ Sbjct: 4395 GRMFSRGSISSCPII 4351 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJQ_ECOLI P76043 Uncharacterized zinc-type alcohol dehydrogenase-like protein ycjQ (1.-.-.-) (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 335 YVDQHPEQS 343 YVD HP+ S Sbjct: 3052 YVDHHPKAS 3026 Score = 16.9 bits (32), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 12/23 (52%) Frame = +1 Query: 30 RVRFGAPKHGTEVVDFRAASPFI 52 R+R +HG ++ SPF+ Sbjct: 6883 RLRTELSQHGILPEEWGGDSPFV 6951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJR_ECOLI P76044 Uncharacterized protein ycjR (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.48 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.48, Method: Compositional matrix adjust. Identities = 17/55 (30%), Positives = 25/55 (45%) Frame = +2 Query: 12 PENILEKFRYIKEMGFDGFEIDGKLLVNNIEEVKAAIKETGLPVTTACGGYDGWI 66 PE ++E FR + EID +L+ E+KAAI++ A D I Sbjct: 4475 PEMLIELFR------IEVPEIDEELI-----EIKAAIRDPASRAKIAVKTNDKRI 4606 Score = 17.7 bits (34), Expect = 2.4, Method: Compositional matrix adjust. Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 2/21 (9%) Frame = +2 Query: 179 DFYHMNI--EEDNLAQALHDN 197 D MNI EE N AQA+ N Sbjct: 4772 DAKTMNIAVEEGNSAQAIGRN 4834 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = -1 Query: 240 EGRIRAEDPAQAYRDSLAWL 259 GR++ P YRD + L Sbjct: 6535 RGRVKQIHPPLPYRDHSSVL 6476 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJS_ECOLI P77503 Uncharacterized oxidoreductase ycjS (1.-.-.-) (351 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJT_ECOLI P77154 Uncharacterized glycosyl hydrolase ycjT (3.2.1.-) (755 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.82 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.82, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 12/20 (60%) Frame = -1 Query: 338 FLLPFHLFSDPTVARSLLRY 357 FLLPF+ V+R LL Y Sbjct: 5989 FLLPFYALLQQPVSRLLLSY 5930 Score = 18.9 bits (37), Expect = 3.4, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -2 Query: 690 LSFPLFWQGCELQ 702 +S PLFWQ L+ Sbjct: 6939 ISSPLFWQDTVLR 6901 Score = 18.9 bits (37), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -1 Query: 5 VTLSEPHFSQH 15 + + PHFS+H Sbjct: 478 IKIVNPHFSRH 446 Score = 18.5 bits (36), Expect = 4.5, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -2 Query: 383 SARSGEEETPEFAAIN 398 SARS +TP A +N Sbjct: 5253 SARSSSVQTPHAANLN 5206 Score = 18.1 bits (35), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +2 Query: 527 PDGVLPQDDSFMAK 540 P+ LP+ DSF K Sbjct: 5033 PESELPEIDSFDKK 5074 Score = 17.3 bits (33), Expect = 9.8, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = -2 Query: 639 DLGADPHSCDD 649 DLG P SC D Sbjct: 3603 DLGMRPLSCRD 3571 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJV_ECOLI P77481 Putative uncharacterized ABC transporter ATP-binding protein ycjV (360 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 115 VNWAAQILGL 124 V WA + LGL Sbjct: 349 VKWACKRLGL 378 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 13/28 (46%) Frame = -2 Query: 242 FIRGTIDGDKFVTETLKLTIPEEKLAVL 269 FIR +GD+F + + + + L Sbjct: 6324 FIR*FSNGDRFTNDNVAVDYSNWLIETL 6241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJW_ECOLI P77615 Uncharacterized HTH-type transcriptional regulator ycjW (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 2/38 (5%) Frame = +1 Query: 75 AGNPFFSEVLHAITAK--AEEEGFDVILQTSHNPAEDL 110 G ++V+ TA+ AEE G VIL+ + E L Sbjct: 6370 GGMATINQVIDQETAQLVAEEMGHKVILRRENELEEAL 6483 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJX_ECOLI P76046 Uncharacterized protein ycjX (465 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = +1 Query: 341 HVTIDQHA 348 HVT QHA Sbjct: 6043 HVTTSQHA 6066 Score = 17.3 bits (33), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 165 GEWSAKW 171 G+WS KW Sbjct: 4023 GKWSVKW 4043 Score = 17.3 bits (33), Expect = 7.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = +1 Query: 254 GMLRERFNYY 263 GM+ +FN++ Sbjct: 1744 GMINNKFNHF 1773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJY_ECOLI P76049 Uncharacterized protein ycjY (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 12/24 (50%) Frame = +3 Query: 105 YVDNTRIGAMGICAGAGYTANAAI 128 Y+DN + +CA Y +A + Sbjct: 3477 YIDNCDGVTVDMCADVSYQVSAVL 3548 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -1 Query: 198 ELRQAWEYYH 207 +L Q W ++H Sbjct: 6109 DLLQPWHHFH 6080 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YCJZ_ECOLI P77333 Uncharacterized HTH-type transcriptional regulator ycjZ (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAC_ECOLI P33230 Uncharacterized protein ydaC (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAE_ECOLI P38394 Uncharacterized protein ydaE (56 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAF_ECOLI P0ACW0 Uncharacterized protein ydaF (51 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 0.70, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -3 Query: 16 VFPNQDGTFTAM 27 +FP + GTF + Sbjct: 5618 LFPPELGTFKVL 5583 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAG_ECOLI P76061 Uncharacterized protein ydaG (44 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAL_ECOLI P76053 Uncharacterized protein ydaL (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.2, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 102 VFSFIQQA 109 +FSF+Q A Sbjct: 5845 IFSFLQSA 5822 Score = 15.8 bits (29), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +2 Query: 53 LDIIPLSQPL 62 LDI P QPL Sbjct: 728 LDIRPPIQPL 757 Score = 15.4 bits (28), Expect = 8.7, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 12/22 (54%) Frame = -1 Query: 90 LLRQPVEECRKMVFSFIQQALA 111 LLR + R + F+QQ +A Sbjct: 6478 LLRVHFHDAR*LYDPFLQQPVA 6413 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAM_ECOLI P77302 Uncharacterized protein ydaM (410 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 11/23 (47%) Frame = -3 Query: 215 RHVQTYAGPIEIYGDKLMLCIVH 237 RHV P+ GD+ LC H Sbjct: 1199 RHV-----PLVPLGDRFCLCFEH 1146 Score = 17.7 bits (34), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -1 Query: 329 FRWGGEEFVLL 339 FR+GG VLL Sbjct: 4135 FRFGGNRRVLL 4103 Score = 17.7 bits (34), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 11/18 (61%) Frame = +3 Query: 269 HITEPGQMQHLAIAQDYS 286 ++ PG + L A+DY+ Sbjct: 3585 EVSSPGLERLLFTAEDYT 3638 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +1 Query: 390 KRVDDALYRA 399 KRV+DAL A Sbjct: 433 KRVEDALKSA 462 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 13/25 (52%) Frame = -3 Query: 170 TMCQKHTWEINMLGRRVMPIMHEIS 194 T+CQ+H I R+ +M +S Sbjct: 728 TVCQRHLAVILAQYRKFHAVMAGLS 654 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAQ_ECOLI P76057 Uncharacterized protein ydaQ (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.86, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +2 Query: 42 KRVSPLGKPDSKRG 55 KR+ P+G RG Sbjct: 4598 KRIDPIGACVGMRG 4639 Score = 15.8 bits (29), Expect = 2.2, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +1 Query: 29 AYRQNCWVEG 38 +YR CW G Sbjct: 4609 SYRGMCWDAG 4638 Score = 15.0 bits (27), Expect = 3.7, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = -3 Query: 32 QNCWVEGFHFKRVSPLG 48 Q WV+ + + PLG Sbjct: 1223 Q*VWVKRYRHVPLVPLG 1173 Score = 14.2 bits (25), Expect = 5.7, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 7/11 (63%) Frame = +1 Query: 60 NYPKINQFIKD 70 N+P F+K+ Sbjct: 1945 NHPLFELFLKN 1977 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAS_ECOLI P76063 Uncharacterized protein ydaS (Precursor) (98 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = +2 Query: 25 LGVSPPSVNQWI 36 L +PPS W+ Sbjct: 6518 LLYAPPSSPSWV 6553 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAT_ECOLI P76064 Uncharacterized protein ydaT (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 10/25 (40%), Gaps = 9/25 (36%) Frame = -1 Query: 77 ILAILPRELR---------HRLCIF 92 IL I P L HR C+F Sbjct: 4843 ILTIAPNRLCRITFFNCYVHRFCVF 4769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAU_ECOLI P76065 Uncharacterized protein ydaU (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +1 Query: 124 RRSRKEADVQTKQER 138 RRSR TKQ++ Sbjct: 6109 RRSRSRGSKTTKQKK 6153 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAV_ECOLI P77546 Uncharacterized protein ydaV (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAW_ECOLI P76066 Putative uncharacterized protein ydaW (203 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +1 Query: 122 TTSRKVASTLAMAISKGR 139 T RK+ STL + S G+ Sbjct: 5563 TLQRKIRSTLNVPSSGGK 5616 Score = 15.8 bits (29), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +2 Query: 155 GDNLPAE 161 GDN PA+ Sbjct: 5147 GDNKPAD 5167 Score = 15.4 bits (28), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = -2 Query: 146 GGKFRYCIP 154 GG+ C+P Sbjct: 744 GGRMSNCLP 718 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDAY_ECOLI P76069 Putative uncharacterized protein ydaY (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +2 Query: 49 LLIDNAARYLLKDW 62 LLI +LLK W Sbjct: 6395 LLIRKQRNWLLKKW 6436 Score = 15.8 bits (29), Expect = 3.8, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 28 LHVGTK 33 +HVGTK Sbjct: 3365 VHVGTK 3382 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDBA_ECOLI P33666 Putative uncharacterized protein ydbA (2003 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDBC_ECOLI P25906 Putative oxidoreductase ydbC (1.-.-.-) (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -1 Query: 204 IAYVPFFPLG 213 I VPF+P+G Sbjct: 949 IGSVPFYPIG 920 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDBD_ECOLI P25907 Uncharacterized protein ydbD (768 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.19, Method: Compositional matrix adjust. Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 7/85 (8%) Frame = +1 Query: 95 LTVKGNISTFSLSNPWVILGNVTATNIVADSPLLITGSINA------SGLVFIDSYYDNP 148 +T+ G++ S +L + +T + A IT I A +G+V ++ D P Sbjct: 6538 VTIMGHVDHGKTS----LLDCIRSTKVAAGEAGGITQHIGAYHVETENGMV---TFLDTP 6696 Query: 149 STIK-GSINARGIFINDIIAPVVAS 172 S+ ARG DI+ VVA+ Sbjct: 6697 GHAAFTSMRARGAQATDIVVLVVAA 6771 Score = 18.9 bits (37), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +3 Query: 212 DALKEIFKRSNIRMA 226 D E+F SNIR A Sbjct: 3750 DGKDEVFALSNIRKA 3794 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDBH_ECOLI P52645 Uncharacterized protein ydbH (879 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 14/21 (66%) Frame = +2 Query: 210 ATATLNLPQEPSLVDAELDWQ 230 +TATL+L + L++ + WQ Sbjct: 6269 STATLSLVKRSPLLN*RIKWQ 6331 Score = 18.5 bits (36), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = -3 Query: 75 TNASLSHPSRWL 86 TNASLS SR + Sbjct: 1847 TNASLSESSRSI 1812 Score = 18.1 bits (35), Expect = 7.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -1 Query: 850 FGDNLQAWLEQNARLP 865 +GD LQ W + LP Sbjct: 6115 YGDLLQPWHHFHLLLP 6068 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDBJ_ECOLI P0ACW2 Uncharacterized protein ydbJ (Precursor) (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDBL_ECOLI P76076 Uncharacterized protein ydbL (Precursor) (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.11, Method: Composition-based stats. Identities = 6/21 (28%), Positives = 13/21 (61%) Frame = +1 Query: 37 FYGYLVALKTDAETEKLVADI 57 + GY+ + D + ++ VAD+ Sbjct: 490 YNGYITKISNDKDNKRFVADV 552 Score = 15.8 bits (29), Expect = 3.6, Method: Compositional matrix adjust. Identities = 3/11 (27%), Positives = 6/11 (54%) Frame = -2 Query: 95 EYVQGINGKWV 105 + +NG W+ Sbjct: 369 SFTSPLNGNWI 337 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCA_ECOLI P0ACW4 Uncharacterized protein ydcA (Precursor) (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.1 bits (22), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -3 Query: 7 ILFMGTLVSFY 17 +LF+ LVS + Sbjct: 4226 VLFVQ*LVSLF 4194 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCC_ECOLI P28917 H repeat-associated protein ydcC (ORF-H) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 10/46 (21%) Frame = -2 Query: 74 IARVVSCISPAKFHECFINWMR--DCH-----SSDDK---DVIAID 109 I +V C FH CF N +R +CH S+ D+ D +A+D Sbjct: 6402 INNLVDCCHTT*FHHCF-NDLRAFNCHFIR*FSNGDRFTNDNVAVD 6268 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = +2 Query: 81 ISPAKFHECF 90 +SP K+++CF Sbjct: 1799 VSPHKWNDCF 1828 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 51 GETHPDFLKQYG 62 G+THP +K+ G Sbjct: 3368 GQTHPQGIKKKG 3333 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +3 Query: 301 NHWHVENKLHWRLDV 315 NHW NK W L + Sbjct: 1023 NHWVYNNKKKWLLRI 1067 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCD_ECOLI P31991 Uncharacterized protein ydcD (ORF-E2) (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = +2 Query: 7 GKLVIFLITLCLF 19 GKL++ +C F Sbjct: 5306 GKLIMAARNICWF 5344 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = +2 Query: 100 RLKNISKLENMEFCATKQRV 119 +L N+S F T QR+ Sbjct: 2285 KLLNVSGFR*RPFLTTYQRI 2344 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCF_ECOLI P34209 Protein ydcF (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCH_ECOLI P0ACW6 Uncharacterized protein ydcH (74 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = +1 Query: 3 PEYRDLISRLKNE 15 PE+R + KN+ Sbjct: 3283 PEFRGFLLFEKND 3321 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCI_ECOLI P77171 Uncharacterized HTH-type transcriptional regulator ydcI (307 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = +1 Query: 30 RAAETLNLSQPA 41 +++E NLSQPA Sbjct: 2755 QSSEWENLSQPA 2790 Score = 16.2 bits (30), Expect = 10.0, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = -1 Query: 165 TGLNYELLFLESLK 178 L Y LFL SLK Sbjct: 2479 NALYYVPLFLASLK 2438 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCJ_ECOLI P76097 Uncharacterized protein ydcJ (447 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.00 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.00, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 14/20 (70%) Frame = +2 Query: 30 GTLLELVADVNLAVLENNPQ 49 G+ +E AD++ +L+NN Q Sbjct: 770 GSRIESTADISKLLLDNNRQ 829 Score = 17.7 bits (34), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 122 NPFRVF 127 NPFRVF Sbjct: 5958 NPFRVF 5941 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 17/25 (68%), Gaps = 1/25 (4%) Frame = +2 Query: 339 LMRQQGLAWFRYRLTP-SGEAHRQA 362 ++RQQ ++WF + L P G HR++ Sbjct: 6731 VLRQQ-ISWF-WLLRPMMGSCHRRS 6799 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCK_ECOLI P76100 Uncharacterized acetyltransferase ydcK (2.3.1.-) (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCL_ECOLI P64451 Uncharacterized lipoprotein ydcL (Precursor) (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCM_ECOLI P76102 Uncharacterized protein ydcM (402 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.8, Method: Compositional matrix adjust. Identities = 14/53 (26%), Positives = 23/53 (43%) Frame = +1 Query: 131 KLGWMRYRNSRQVTGVVKNVTVSQSCGKWYISIQTESEVSTPVHPSASMVGLD 183 KL M +N T VVK V G + ++ + S P+H + ++ D Sbjct: 2887 KLALMI*KNVIFNTEVVKLVDTLP*GGSARLGLRVQIPSSVPIHRDSLLLDDD 3045 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCN_ECOLI P77626 Uncharacterized HTH-type transcriptional regulator ydcN (178 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 97 LCFEHFS 103 LCFEH+ Sbjct: 1160 LCFEHYC 1140 Score = 16.5 bits (31), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 24 SRLAEATGVSK 34 SRL ATG+ K Sbjct: 6278 SRLTTATGLLK 6246 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCO_ECOLI P76103 Inner membrane protein ydcO (391 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 10/12 (83%) Frame = -1 Query: 9 PTLLAGFLAVLI 20 PTLLAG+ A ++ Sbjct: 6931 PTLLAGYRAEIV 6896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCP_ECOLI P76104 Uncharacterized protease ydcP (3.4.-.-) (Precursor) (653 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCQ_ECOLI P67697 Uncharacterized HTH-type transcriptional regulator ydcQ (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.00 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.00, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = -3 Query: 108 TRLFNLHHATKIDA 121 RLFN+ H T + A Sbjct: 3566 NRLFNI*HGTHLVA 3525 Score = 15.0 bits (27), Expect = 7.3, Method: Composition-based stats. Identities = 9/24 (37%), Positives = 15/24 (62%), Gaps = 1/24 (4%) Frame = +2 Query: 113 LHHATKIDAVQLAAK-ALGKELSL 135 L H T D Q++ + A+GK+L + Sbjct: 668 LQHGT-YDIAQVSQQGAVGKQLDI 736 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCR_ECOLI P77730 Uncharacterized HTH-type transcriptional regulator ydcR (468 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -2 Query: 426 APGKMFSTGE 435 +PG+MFS G Sbjct: 4401 SPGRMFSRGS 4372 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 14/29 (48%) Frame = +2 Query: 117 LFPLQQLNRSLAQVSKTATAMSVIENLPP 145 + PLQ +AQVS+ ++ PP Sbjct: 659 ILPLQHGTYDIAQVSQQGAVGKQLDIRPP 745 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 403 LELPEPLDAGEL 414 ++LPEPLD + Sbjct: 2672 IKLPEPLDPNRV 2637 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCS_ECOLI P76108 Putative ABC transporter periplasmic-binding protein ydcS (Precursor) (381 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/25 (20%), Positives = 13/25 (52%) Frame = -2 Query: 232 IHRYWHDTTVQMSDFKNEGVVASSA 256 + R WHD + ++ ++ S++ Sbjct: 6801 LDRLWHDPIIGRNNQNHDICCLSTS 6727 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCT_ECOLI P77795 Uncharacterized ABC transporter ATP-binding protein ydcT (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCU_ECOLI P77156 Inner membrane ABC transporter permease protein ydcU (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 275 SQQGAIGNM 283 SQQGA+G Sbjct: 701 SQQGAVGKQ 727 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 207 LERLPPSL 214 LER+PP L Sbjct: 2618 LERVPPQL 2641 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -2 Query: 117 SGKMKAFFYIAVMLPMWA 134 S K+ +FF V+ WA Sbjct: 5151 SPKLSSFFRANVVSTFWA 5098 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCV_ECOLI P0AFR9 Inner membrane ABC transporter permease protein ydcV (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +3 Query: 172 ANGWQTF 178 +NGW T+ Sbjct: 1704 SNGWSTY 1724 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCX_ECOLI P64453 Uncharacterized protein ydcX (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.69, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +2 Query: 35 LSAFLVGATWPMSFP 49 L+ + + W MSFP Sbjct: 2144 LACLKIKSPWVMSFP 2188 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCY_ECOLI P64455 Uncharacterized protein ydcY (77 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.38 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.38, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 45 QQRLRTAIAHHG 56 +RLRT ++ HG Sbjct: 6877 PERLRTELSQHG 6912 Score = 13.9 bits (24), Expect = 8.2, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = +2 Query: 1 MSHLDEVIARVDAAI 15 + +DE + + AAI Sbjct: 4508 VPEIDEELIEIKAAI 4552 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDCZ_ECOLI P76111 Inner membrane protein ydcZ (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.74, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%) Frame = -1 Query: 97 ATTIAVLVASQLIG-GLMLDIFRSHGVPLRAL 127 ATT+A + QLI G I R+ +P+ A+ Sbjct: 1438 ATTVAKITHLQLIATGF*FRILRT*CIPITAV 1343 Score = 15.4 bits (28), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -3 Query: 124 LRALFGPICGAIL 136 L +LFG +CG L Sbjct: 4208 LVSLFG*LCGQKL 4170 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDA_ECOLI P31826 Inner membrane ABC transporter ATP-binding protein yddA (CDS102) (561 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDB_ECOLI P31827 Uncharacterized protein yddB (CDS103) (790 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDE_ECOLI P37757 Uncharacterized isomerase yddE (5.1.-.-) (ORFB) (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 16 FRGNSAGVV 24 FRGN GV+ Sbjct: 2245 FRGNLGGVI 2271 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDG_ECOLI P46136 Inner membrane protein yddG (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.18, Method: Compositional matrix adjust. Identities = 11/30 (36%), Positives = 14/30 (46%) Frame = +2 Query: 66 LAGSLLFVSYEICLALSLGYAATHHQAIEV 95 L +F + EI LA + H Q IEV Sbjct: 3890 LPREKIFEALEIALATATKKK--HEQEIEV 3973 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDH_ECOLI P76121 Uncharacterized protein yddH (189 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 10/14 (71%) Frame = +2 Query: 41 WSMPVEFEPPRVAI 54 W++ +E PP++ + Sbjct: 2606 WALHLERVPPQLCL 2647 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDJ_ECOLI P76122 Uncharacterized protein yddJ (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDK_ECOLI P76123 Putative uncharacterized protein yddK (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +1 Query: 107 LQNFTSINLDNNQFTHF 123 +Q F + NN+F HF Sbjct: 1723 IQAFDRKGMINNKFNHF 1773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDL_ECOLI P77519 Putative uncharacterized protein yddL (Precursor) (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.2, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +2 Query: 12 GLLAANVAHAAEVYNK 27 GLLA + +YN+ Sbjct: 6197 GLLAVKAKESQALYNR 6244 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDM_ECOLI P67699 Uncharacterized HTH-type transcriptional regulator yddM (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDV_ECOLI P0AA89 Diguanylate cyclase yddV (DGC) (2.7.7.65) (460 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDDW_ECOLI P64426 UPF0748 lipoprotein yddW (Precursor) (439 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.41, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 9/19 (47%) Frame = +1 Query: 109 QVKPDGTALWPSKILPWSD 127 + PDG LW K L D Sbjct: 2179 EFSPDGCRLWDKKTLEKMD 2235 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = +3 Query: 236 DYFYTESPGSRLND 249 DYF GSR ND Sbjct: 198 DYFSNGQCGSRWND 239 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = -2 Query: 198 TSGDRFVLDPGIPEVQDWI 216 ++GDRF D + +W+ Sbjct: 6309 SNGDRFTNDNVAVDYSNWL 6253 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEE_ECOLI P31126 Uncharacterized MFS-type transporter ydeE (395 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEH_ECOLI P31129 Uncharacterized protein ydeH (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEI_ECOLI P31130 Uncharacterized protein ydeI (Precursor) (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.1, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +1 Query: 45 DDAKKMTVDF 54 DDA + VDF Sbjct: 2104 DDAGLILVDF 2133 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEJ_ECOLI P31131 Protein ydeJ (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEK_ECOLI P32051 Uncharacterized lipoprotein ydeK (ORFT) (Precursor) (1325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEM_ECOLI P76134 Anaerobic sulfatase-maturating enzyme homolog ydeM (AnSME homolog) (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -2 Query: 91 LQTNGILLNNEW 102 LQT +L EW Sbjct: 2433 LQTTSMLFKTEW 2398 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEN_ECOLI P77318 Uncharacterized sulfatase ydeN (3.1.6.-) (Precursor) (560 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = -3 Query: 209 TFSAEEWQPQNRGFD 223 +F + +P+N GFD Sbjct: 3320 SFFSNNKKPRNSGFD 3276 Score = 17.7 bits (34), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 459 HKFVRHQSDDYP 470 H+ H+SD YP Sbjct: 2266 HRLNCHESDLYP 2231 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEO_ECOLI P76135 HTH-type transcriptional regulator ydeO (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -2 Query: 103 HHNFSELLLFSC 114 HH F++L F+C Sbjct: 6363 HHCFNDLRAFNC 6328 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 11/41 (26%), Positives = 18/41 (43%) Frame = -2 Query: 53 FTENTIKKYLQCTNIQTVTVPVPAKFLRASNVPTGLLNEMI 93 FTE I Q +++ + PAK S G++ +I Sbjct: 2097 FTEYIINLITQLFHLRQMRFTSPAKGFTVSLTDNGIVQLII 1975 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -1 Query: 222 HFGNSPKRVS 231 HF P+R S Sbjct: 460 HFSRHPRRAS 431 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = -1 Query: 230 VSKEYRC 236 +++EYRC Sbjct: 2845 ITEEYRC 2825 Score = 16.2 bits (30), Expect = 7.8, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = -3 Query: 230 VSKEYRCQSH 239 +++ Y CQ+H Sbjct: 1445 IARYYGCQNH 1416 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEP_ECOLI P77561 Protein ydeP (759 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.31, Method: Compositional matrix adjust. Identities = 12/44 (27%), Positives = 17/44 (38%) Frame = +2 Query: 459 LICMGGNFALAMPDREASAVPLTQLDLAVHVATKLNRSHLLTAR 502 +C+GG F VHV TK+NR + T + Sbjct: 3341 FLCLGGEF--------------------VHVGTKINRDNFSTGK 3412 Score = 21.2 bits (43), Expect = 0.67, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = +1 Query: 440 PGHAAIASMQA 450 PGHAA SM+A Sbjct: 6694 PGHAAFTSMRA 6726 Score = 18.1 bits (35), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -2 Query: 175 FPDCSNMCHEPTS 187 FP CS C T+ Sbjct: 4278 FPSCSRNCSITTA 4240 Score = 17.7 bits (34), Expect = 8.5, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +1 Query: 52 CAWPDPKHSAS 62 C W +HSA+ Sbjct: 712 CRWQTVRHSAT 744 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEQ_ECOLI P77588 Uncharacterized fimbrial-like protein ydeQ (Precursor) (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 12/43 (27%), Positives = 20/43 (46%) Frame = +1 Query: 45 NLDPVIQPGQNLVVDLSQHISCWNDYGGWYDTDHINLVQGSAF 87 N DP + L +LSQH ++GG H++ +G+ Sbjct: 6868 NADP-----ERLRTELSQHGILPEEWGGDSPFVHVSAKKGTGI 6981 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%) Frame = +3 Query: 271 SKVPLGLSATYGQTGN 286 SKVPL S T+G N Sbjct: 705 SKVPLANS*TFGHQFN 752 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 2/34 (5%) Frame = -2 Query: 100 WNNVTYPFPLT--TNTNVLDIGDKTPMPLPLKLY 131 + T+ +PLT ++ IG PLP LY Sbjct: 279 FGKFTFSYPLTKLRHSTCCHIGRY*NNPLPSFLY 178 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDER_ECOLI P77294 Uncharacterized fimbrial-like protein ydeR (Precursor) (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDES_ECOLI P77789 Uncharacterized fimbrial-like protein ydeS (Precursor) (176 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +2 Query: 104 DEGSNTASGL 113 EGS++ SGL Sbjct: 6620 QEGSHSISGL 6649 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDET_ECOLI P76137 Putative uncharacterized protein ydet (382 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDEU_ECOLI P77286 Uncharacterized protein ydeU (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.1, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 17/47 (36%), Gaps = 9/47 (19%) Frame = -3 Query: 296 DNRSADDYDSRGVTASVEGGYT---------FEAGTFSGSEGTLNTW 333 D+ S D D +V YT + FSG + L TW Sbjct: 3737 DHFSIDSLDDTLPLTTVLHCYT*R*IDSFPQIVSIIFSGKQQALKTW 3597 Score = 17.3 bits (33), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +2 Query: 33 GDNSPTDKM 41 GDN P D + Sbjct: 5147 GDNKPADDL 5173 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFA_ECOLI P0ACW8 Uncharacterized protein ydfA (51 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 0.62, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -3 Query: 16 VFPNQDGTFTAM 27 +FP + GTF + Sbjct: 5618 LFPPELGTFKVL 5583 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFB_ECOLI P29009 Uncharacterized protein ydfB (42 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFD_ECOLI P29010 Uncharacterized protein ydfD (63 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFE_ECOLI Q47138 Putative uncharacterized protein ydfE (ORF6) (Fragment) (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.019 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.019, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 8/49 (16%) Frame = +2 Query: 44 FLEHYPAAQDCAY-----KFIVCEDKPGIPR---PALDSWDAEYMQENR 84 F+EH ++CA +F E+ +P P +DS+D + +QE R Sbjct: 4946 FIEHLEIDEECATVLVEAEFSSLEELAYVPESELPEIDSFDKKRLQELR 5092 Score = 23.5 bits (49), Expect = 0.041, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 13/21 (61%) Frame = +3 Query: 111 PEVQNAVMVKFDTCENITVDM 131 P Q+ + + D C+ +TVDM Sbjct: 3450 PGRQSTLRIYIDNCDGVTVDM 3512 Score = 16.9 bits (32), Expect = 4.6, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = +1 Query: 70 PALDSWDAEY 79 PA+ +W+ Y Sbjct: 661 PAITAWNLRY 690 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFG_ECOLI P39831 NADP-dependent L-serine/L-allo-threonine dehydrogenase ydfG (1.1.1.-) (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.52, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +1 Query: 35 ERLQELKDELGDNLYIAQLD 54 ERL +K +GDN + D Sbjct: 97 ERLSMIKPSVGDNFILLSGD 156 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 12/18 (66%) Frame = +1 Query: 22 QQGHKVIATGRRQERLQE 39 + GHKVI RR+ L+E Sbjct: 6430 EMGHKVIL--RRENELEE 6477 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFH_ECOLI P0ACM2 Uncharacterized HTH-type transcriptional regulator ydfH (228 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.48 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.48, Method: Compositional matrix adjust. Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%) Frame = -3 Query: 151 LAWDTI--ENLKATVDRVRYMSFDHVSPPEMLLRQHLDIFS 189 L DT+ + T R+ S ++PP++ ++ L IFS Sbjct: 2345 LFADTLSEKGANGTPIRLATCS*ASITPPKLPRKRSLSIFS 2223 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 26 VHCLIA 31 +HCLIA Sbjct: 6572 LHCLIA 6589 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFI_ECOLI P77260 Uncharacterized oxidoreductase ydfI (1.-.-.-) (486 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -1 Query: 252 EPFRQWVIEDNFVA 265 EPF +W I+ F+ Sbjct: 640 EPF*RWCIKIGFIT 599 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFJ_ECOLI P77228 Putative inner membrane metabolite transport protein ydfJ (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 10/12 (83%) Frame = +1 Query: 143 TAIWAFMFFILS 154 TAI A +FFI+S Sbjct: 2683 TAILATLFFIVS 2718 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFK_ECOLI P76154 Uncharacterized protein ydfK (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFO_ECOLI P76156 Uncharacterized protein ydfO (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.8, Method: Composition-based stats. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +2 Query: 39 LATENVHIVLKNDN 52 L E + IVL +DN Sbjct: 4667 LGGERIDIVLWDDN 4708 Score = 16.5 bits (31), Expect = 2.6, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 8/11 (72%) Frame = +1 Query: 26 ELKRHNVSHYI 36 E++ HN H++ Sbjct: 2452 EIEAHNKEHFL 2484 Score = 15.4 bits (28), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -1 Query: 38 YLATENVHIV 47 YLA + VH++ Sbjct: 5557 YLALDLVHVL 5528 Score = 14.6 bits (26), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 5/5 (100%) Frame = -1 Query: 18 LNYQW 22 LN+QW Sbjct: 97 LNFQW 83 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFP_ECOLI P76158 Uncharacterized protein ydfP (Precursor) (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.2, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -2 Query: 149 VTCQQIY 155 + CQQ+Y Sbjct: 5418 LCCQQLY 5398 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFR_ECOLI P76160 Uncharacterized protein ydfR (103 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.023 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.023, Method: Compositional matrix adjust. Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 15/60 (25%) Frame = +1 Query: 15 FENKVTV---------------TVALQDKERFDGEIFDLDVAMDRVEGAALEFYEAAARR 59 FENK+T+ T+ DK+RF G + G +E YE A+R Sbjct: 2152 FENKITLGDEFSPDGCRLWDKKTLEKMDKDRFRGNL-----------GGVIEAYEQVAKR 2298 Score = 15.4 bits (28), Expect = 4.3, Method: Composition-based stats. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +3 Query: 46 EGAALEFYEAAARRSVRQVFL 66 +GAA RRS+ Q+ L Sbjct: 3078 DGAAW*LVGLITRRSLVQIRL 3140 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFU_ECOLI P76162 Uncharacterized protein ydfU (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 13/39 (33%), Positives = 18/39 (46%) Frame = -1 Query: 264 GTKAHDLFVLPLCRKHHNELHTDTVAFEDKYGSQLELIF 302 GT A + L CR+ T + F +YGS +IF Sbjct: 1690 GTPAPNN*DLQ*CRQF*PFRDTTRLIFASQYGSNSVIIF 1574 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +3 Query: 54 RHVTSCQWPNGDYHH 68 RHVT +P+ Y H Sbjct: 1188 RHVTIALYPDLLYEH 1232 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFV_ECOLI P76163 Uncharacterized protein ydfV (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.3, Method: Composition-based stats. Identities = 9/23 (39%), Positives = 12/23 (52%) Frame = +1 Query: 35 AAIAKSILYCAGQLVFKESGHHL 57 A I + I QLV +E GH + Sbjct: 6379 ATINQVIDQETAQLVAEEMGHKV 6447 Score = 14.2 bits (25), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = -3 Query: 4 QVSHYNMLRASHEG 17 VSH L H+G Sbjct: 4433 DVSHTKYL*CGHQG 4392 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFW_ECOLI P76164 Uncharacterized protein ydfW in Qin prophage region (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 3.9, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = +1 Query: 7 MNEWIMPV 14 +NE +MP+ Sbjct: 289 LNERLMPL 312 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFX_ECOLI P76165 Uncharacterized protein ydfX (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.7, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 8/17 (47%) Frame = +3 Query: 6 EQAREALDAWICRPGMT 22 E R A W C G+T Sbjct: 2937 EIGRHATLRW*CSIGLT 2987 Score = 14.2 bits (25), Expect = 8.1, Method: Composition-based stats. Identities = 10/26 (38%), Positives = 10/26 (38%) Frame = -3 Query: 20 GMTQEQATILITEAFWALKERPNIDV 45 GMT A T A R IDV Sbjct: 6788 GMTPSSAATTKTTISVA*APRARIDV 6711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDFZ_ECOLI P64463 Putative selenoprotein ydfZ (67 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 6.6, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 57 APLDLIRLGM 66 AP+ IRL + Sbjct: 4620 APIGSIRLSL 4591 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDGA_ECOLI P77804 Protein ydgA (Precursor) (502 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDGC_ECOLI P0ACX0 Inner membrane protein ydgC (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -3 Query: 92 SVACWGISAWVLI 104 + AC G+S V I Sbjct: 6710 NAACPGVSKKVTI 6672 Score = 16.2 bits (30), Expect = 2.8, Method: Composition-based stats. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = -1 Query: 23 TKNYYIAGLIPLFP 36 TKN GLI L P Sbjct: 3304 TKNPETRGLIQLDP 3263 Score = 14.6 bits (26), Expect = 7.1, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +1 Query: 62 SMWSIIPYF 70 + W+I P+F Sbjct: 3316 NDWAIRPFF 3342 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDGD_ECOLI P76176 Uncharacterized serine protease ydgD (3.4.21.-) (Precursor) (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDGH_ECOLI P76177 Protein ydgH (Precursor) (314 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDGJ_ECOLI P77376 Uncharacterized oxidoreductase ydgJ (1.-.-.-) (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDGK_ECOLI P76180 Inner membrane protein ydgK (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 14/22 (63%) Frame = +2 Query: 99 LLAVKAFAFSPVEDGIAVRQLL 120 LLAVKA + + +++ QLL Sbjct: 6200 LLAVKAKESQALYNRVSISQLL 6265 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDGU_ECOLI A5A617 Uncharacterized protein ydgU (27 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHB_ECOLI P0ACR2 Uncharacterized HTH-type transcriptional regulator ydhB (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +3 Query: 13 VARNGSFSAAAQELHRV 29 +ARNG ++ + HRV Sbjct: 24 IARNGGEISSNPQYHRV 74 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +1 Query: 250 NEGKW 254 NEGKW Sbjct: 5989 NEGKW 6003 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 297 EWLREPE 303 +WLREP+ Sbjct: 3152 KWLREPD 3132 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHC_ECOLI P37597 Inner membrane transport protein ydhC (403 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%) Frame = -1 Query: 247 QTIAFLIGGYGCRAALQKWQGKQLLP 272 Q ++ L+ YG LQ + LLP Sbjct: 5959 QPVSRLLLSYGALLVLQNVSVQPLLP 5882 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 320 QALRPFPH 327 Q RP+PH Sbjct: 2620 QMKRPYPH 2597 Score = 16.9 bits (32), Expect = 6.8, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -3 Query: 388 GCQNH 392 GCQNH Sbjct: 1430 GCQNH 1416 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHF_ECOLI P76187 Oxidoreductase ydhF (1.-.-.-) (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHI_ECOLI P64471 Uncharacterized protein ydhI (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHJ_ECOLI P76185 Uncharacterized protein ydhJ (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 2/34 (5%) Frame = -1 Query: 213 YSDNKT--LQGHVSSIGRAIYDQSVESDSSLIPD 244 Y D+ + L+ H R +YD ++ +L PD Sbjct: 6499 YRDHSSVLLRVHFHD-AR*LYDPFLQQPVALFPD 6401 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -3 Query: 214 SDNKTLQGHVSSIG 227 SDN +GH+ +G Sbjct: 980 SDNGLQRGHLHRLG 939 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHK_ECOLI P76186 Uncharacterized transporter ydhK (670 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -2 Query: 362 SGLRTFCTLMMIGAWSI 378 S RTFCT+ W + Sbjct: 4236 SASRTFCTITCFAVWVV 4186 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHL_ECOLI P64474 Uncharacterized protein ydhL (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.23, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 12/24 (50%) Frame = +3 Query: 2 AEQLEFFPVQSPCRGICQSDERGF 25 E ++ P+Q+ R +C S E Sbjct: 939 TEPMKMSPLQAVIRLVCNSKEISL 1010 Score = 16.5 bits (31), Expect = 1.2, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 26 CRGCFRSRDERFN 38 C G + ++ RFN Sbjct: 4198 CLGSYAVKNYRFN 4160 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHM_ECOLI P67430 Uncharacterized HTH-type transcriptional regulator ydhM (199 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.50, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -1 Query: 94 LNQFCQHGTI 103 NQF QH TI Sbjct: 1114 FNQFIQHSTI 1085 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHO_ECOLI P76190 Uncharacterized protein ydhO (Precursor) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 14/36 (38%) Frame = -1 Query: 163 PRTGFDCSGLVYYAYKDLVKIRIPRTANEMYHLRDA 198 PRTGF+ P + E YHL+ A Sbjct: 3007 PRTGFE-----------------PVSPIEHYHLKVA 2951 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHP_ECOLI P77389 Inner membrane transport protein ydhP (389 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.3, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 9/16 (56%) Frame = -2 Query: 108 GAFFGLGSVVAASVVP 123 G F GS+ + ++P Sbjct: 4395 GRMFSRGSISSCPIIP 4348 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHQ_ECOLI P77552 Uncharacterized protein ydhQ (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHR_ECOLI P0ACX3 Putative monooxygenase ydhR (1.-.-.-) (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 7.4, Method: Composition-based stats. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = -3 Query: 73 LKNLGVEEVVAKVFDVNEPL 92 +KN V +V + EPL Sbjct: 2711 IKNNVANIAVIRVIKLPEPL 2652 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHS_ECOLI P77148 Uncharacterized protein ydhS (534 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +2 Query: 216 SFIEDDKQHVVFHR 229 ++IED + VVF R Sbjct: 4142 TYIEDQIKSVVFDR 4183 Score = 16.9 bits (32), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +2 Query: 294 FADPDWSQRIALESLN 309 F+D WS +A + N Sbjct: 3065 FSDAGWSSLVARRAHN 3112 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHT_ECOLI P77147 Uncharacterized protein ydhT (270 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.61, Method: Compositional matrix adjust. Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 1/56 (1%) Frame = -3 Query: 45 DWAESLVEYAWKKWLADENFAHQE-VSSMQKLATDPGERPFCSQFARSDDHARIGC 99 W+ SL+++ L + +H E +S ++L P CS S ++GC Sbjct: 3947 SWSLSLMQF-----LMLQKSSHVEGISH*KRLLQQP--ESLCSS*VASSKFLKVGC 3801 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHV_ECOLI P76192 Uncharacterized protein ydhV (700 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 7.1, Method: Compositional matrix adjust. Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 5/45 (11%) Frame = +1 Query: 20 TLE--DSSKFKSFVGGMGFGYKIMYDEVPPGTKPFDE---ANKLV 59 TLE D +F+ +GG+ Y+ + + PF + ANK + Sbjct: 2218 TLEKMDKDRFRGNLGGVIEAYEQVAKRIGVPLAPFSDNVSANKKI 2352 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHW_ECOLI P77564 Uncharacterized protein ydhW (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHX_ECOLI P77375 Uncharacterized ferredoxin-like protein ydhX (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 11/27 (40%) Frame = -2 Query: 71 RACRKTNHVPAQGSRLSIAHIPVTDND 97 RA R H P RLS+ + D Sbjct: 4644 RAPRIPTHAPIGSIRLSLVLTAILARD 4564 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 199 DSPEIQAW 206 D+P I AW Sbjct: 655 DNPAITAW 678 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHY_ECOLI P0AAL6 Uncharacterized ferredoxin-like protein ydhY (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -3 Query: 124 RQCKEPQC 131 CK+PQC Sbjct: 2438 EDCKQPQC 2415 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDHZ_ECOLI P0ACX5 Uncharacterized protein ydhZ (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 4.0, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +2 Query: 10 LYREMCR 16 +YR+ CR Sbjct: 3221 IYRKSCR 3241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIA_ECOLI P0A8A4 Putative phosphotransferase ydiA (2.7.-.-) (277 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/28 (25%), Positives = 16/28 (57%) Frame = +1 Query: 175 GIRAANYPFIADDMDNLVLPASLKPLQH 202 G +A + + D+ V+P +++ +QH Sbjct: 6730 GAQATDIVVLVVAADDGVMPQTIEAIQH 6813 Score = 16.5 bits (31), Expect = 5.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 161 CGKTPTS 167 CG TP+S Sbjct: 6791 CGMTPSS 6771 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIB_ECOLI P0A6D5 Quinate/shikimate dehydrogenase (1.1.1.282) (NAD-dependent shikimate 5-dehydrogenase 2) (288 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +3 Query: 255 GYGMLLWQGAEQFTLW 270 GYG +W G ++W Sbjct: 2601 GYGRFIWSGCLLNSVW 2648 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +3 Query: 67 SMPNKQLACEYVDELTPAAK 86 SM ++ +C Y ELT K Sbjct: 639 SMHHRG*SCHYSMELTILRK 698 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 12/25 (48%) Frame = +1 Query: 30 LEKAGLPFTYMAFEVDNDSFPGAIE 54 LE AG+P DN++ +E Sbjct: 1786 LEAAGIPTQMERLLSDNEALVKRLE 1860 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 7/11 (63%) Frame = -1 Query: 67 SMPNKQLACEY 77 ++PN + C Y Sbjct: 1255 TLPNDGVGCSY 1223 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIE_ECOLI P0ACX9 Uncharacterized protein ydiE (63 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 39 KLIIDH 44 KLIIDH Sbjct: 1764 KLIIDH 1747 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIF_ECOLI P37766 Uncharacterized protein ydiF (531 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIH_ECOLI P64476 Uncharacterized protein ydiH (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.70, Method: Composition-based stats. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = +1 Query: 30 TQLDPTQLAIEFLRRDQSNL 49 T DP L +EF R D S + Sbjct: 1654 TTEDPNYLVLEF-RNDTSAM 1710 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDII_ECOLI P77781 Esterase ydiI (3.1.-.-) (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.40, Method: Composition-based stats. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -2 Query: 126 CCSSRLTTAI 135 CC SRL T I Sbjct: 1311 CCRSRLVTVI 1282 Score = 15.0 bits (27), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 128 SSRLTTA 134 +SRLTTA Sbjct: 6281 TSRLTTA 6261 Score = 15.0 bits (27), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = +1 Query: 22 GFLDIRFEHIGDDTLEA 38 G ++ +F H + LEA Sbjct: 1744 GMINNKFNHFIMNRLEA 1794 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIJ_ECOLI P77748 Uncharacterized protein ydiJ (1018 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 44 DNSIYQLLPDAV 55 DNS + PDA+ Sbjct: 2074 DNSAFSFAPDAL 2039 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIK_ECOLI P0AFS7 UPF0118 inner membrane protein ydiK (370 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -2 Query: 247 LMILSCLV 254 L ILSCLV Sbjct: 3846 LFILSCLV 3823 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 8/16 (50%) Frame = -3 Query: 340 LFAAWVEEVPPPTDQP 355 L VEE P P + P Sbjct: 2654 LDPNRVEEAPAPNEAP 2607 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +3 Query: 252 CLVQLGPLPVLIPAIIWLYWTGD 274 CL + G ++ I WLY+ Sbjct: 447 CLEKCGFTILIARKI*WLYYKNQ 515 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -1 Query: 262 LIPAIIWLY 270 L+PA +WL+ Sbjct: 5416 LLPATLWLH 5390 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIL_ECOLI P76196 Uncharacterized protein ydiL (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.12, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 11/12 (91%) Frame = +2 Query: 26 QTGDSESWRQWE 37 +TGD E++R+W+ Sbjct: 3992 KTGDFETFRRWK 4027 Score = 15.4 bits (28), Expect = 4.8, Method: Composition-based stats. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 83 DLTAFQRVYPDGNFI 97 +LT+ QRV NF+ Sbjct: 5180 NLTSRQRVCYHQNFL 5136 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIM_ECOLI P76197 Inner membrane transport protein ydiM (404 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 184 PPHPGRRLPV 193 PPH R+P Sbjct: 6935 PPHSSGRIPC 6906 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 9/34 (26%), Positives = 17/34 (50%) Frame = -1 Query: 179 YRCTFPPHPGRRLPVIKKTTSSTEHRCSIIDLAS 212 Y C F + + +P+ SS +CS+ +A+ Sbjct: 5665 Y*CKFVFYEFQFVPIYFFHRSSEHLKCSVFSVAT 5564 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -2 Query: 284 ISFIALFTVCL 294 +SF+ FT CL Sbjct: 5793 VSFLCTFTFCL 5761 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIN_ECOLI P76198 Inner membrane transport protein ydiN (423 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 399 IIPENDV 405 IIP+ND+ Sbjct: 4705 IIPQNDI 4685 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIO_ECOLI P0A9U8 Uncharacterized protein ydiO (383 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 15/31 (48%) Frame = +1 Query: 32 CDQNGTYPREFMRALADNGISMLGVPEEFGG 62 D+ P L+ +GI +PEE+GG Sbjct: 6856 IDKPNADPERLRTELSQHGI----LPEEWGG 6936 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIP_ECOLI P77402 Uncharacterized HTH-type transcriptional regulator ydiP (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.60, Method: Compositional matrix adjust. Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 6/24 (25%) Frame = -1 Query: 10 SETLFVAGKTPRL------SRFAF 27 S+ LFV K PRL +RFA Sbjct: 3859 SQNLFVHPKLPRLNF*KWGARFAL 3788 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 13/20 (65%) Frame = +1 Query: 191 NNYREKITLEQLSKKFRASV 210 N Y KI+ ++ +K+F A V Sbjct: 493 NGYITKISNDKDNKRFVADV 552 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIQ_ECOLI P76201 Putative electron transfer flavoprotein subunit ydiQ (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 12/23 (52%), Positives = 12/23 (52%) Frame = -1 Query: 122 LYAQQVGLLVGEILQLPVINAVS 144 L A GLL LQLPV A S Sbjct: 304 LNAHLNGLLR*IYLQLPVDKAPS 236 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIR_ECOLI P77378 Putative electron transfer flavoprotein subunit ydiR (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 3/39 (7%) Frame = +1 Query: 79 HPAMLLLAATKRGKALAARLSVQLNAALV---NDATAVD 114 H M LA RGKA + N ++ ND +A+D Sbjct: 1597 HIEMQKLAELYRGKAKTVYTTEDPNYLVLEFRNDTSAMD 1713 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIS_ECOLI P77337 Probable electron transfer flavoprotein-quinone oxidoreductase ydiS (1.5.5.-) (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.32, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +1 Query: 96 DVPQHASYTVLRNR 109 D P HA++T +R R Sbjct: 6688 DTPGHAAFTSMRAR 6729 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 11/50 (22%), Positives = 19/50 (38%) Frame = -2 Query: 190 GLTPEQINDRFNITGEEGAAWLFAGSPSDGLMGGGFLYTNKDSISLGLVC 239 +T + R T A W+ S + L+ DS+ +G+ C Sbjct: 4254 SITTARSASRTFCTITCFAVWVVMRSKTTDLIWSSI*VGISDSVEIGVFC 4105 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIT_ECOLI P77714 Ferredoxin-like protein ydiT (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +3 Query: 21 DEGHPHIILAENP 33 D GHP +E+P Sbjct: 6795 DRGHPTC*SSESP 6833 Score = 15.8 bits (29), Expect = 2.9, Method: Composition-based stats. Identities = 7/25 (28%), Positives = 10/25 (40%) Frame = -1 Query: 71 CRVLCGNTILEQWQYPAGTFGIDFR 95 CR+ + W + A F FR Sbjct: 4549 CRLNFDQLFVNFWYFNAEKFNQHFR 4475 Score = 14.6 bits (26), Expect = 6.6, Method: Composition-based stats. Identities = 9/17 (52%), Positives = 9/17 (52%) Frame = +3 Query: 64 GCLECGTCRVLCGNTIL 80 GCLE CG TIL Sbjct: 444 GCLE------KCGFTIL 476 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIU_ECOLI P77649 UPF0061 protein ydiU (478 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 203 HYWSHL 208 HYWSH+ Sbjct: 1585 HYWSHI 1602 Score = 18.9 bits (37), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 13/27 (48%) Frame = +1 Query: 272 CNHSDHQGRYSFDNQPAVALWNLQRLA 298 C + + DN PA+ WNL+ A Sbjct: 619 CTSAKKAQCITGDN-PAITAWNLRYCA 696 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIV_ECOLI P76204 Uncharacterized protein ydiV (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%), Gaps = 3/16 (18%) Frame = -3 Query: 186 QAQIS---PCCNCIIA 198 +A IS PCCN I A Sbjct: 2615 EAPISAPLPCCNTISA 2568 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIY_ECOLI P76206 Uncharacterized protein ydiY (Precursor) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 16/32 (50%), Gaps = 5/32 (15%) Frame = -2 Query: 206 SESALNVAINE-----HFGLKVAYNVTWNSEP 232 S ++N++I HF L +T +S+P Sbjct: 4962 SRCSINISIAVRVSAWHFSLSSLIVITLSSQP 4867 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 8/17 (47%) Frame = +2 Query: 220 LKVAYNVTWNSEPPESA 236 ++ Y + W PP A Sbjct: 1223 VRAPYAIVWQRLPPALA 1273 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 216 EHFGLKVA 223 EH+ LKVA Sbjct: 2974 EHYHLKVA 2951 Score = 16.9 bits (32), Expect = 3.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 9/9 (100%) Frame = +2 Query: 101 GGRSRFNLT 109 GG+++FN+T Sbjct: 3647 GGKNQFNVT 3673 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDIZ_ECOLI P64479 Uncharacterized protein ydiZ (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.1, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 11/18 (61%), Gaps = 1/18 (5%) Frame = +2 Query: 76 ATGKDPEITITT-WEEWN 92 A +D T+TT W +WN Sbjct: 887 ADRQDANQTLTTDWIKWN 940 Score = 16.5 bits (31), Expect = 1.9, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 4 GDLVRY 9 GDL+RY Sbjct: 6675 GDLLRY 6692 Score = 15.8 bits (29), Expect = 2.7, Method: Composition-based stats. Identities = 5/15 (33%), Positives = 7/15 (46%) Frame = +1 Query: 8 RYVITVMLHEDTLTE 22 RY++ H D E Sbjct: 832 RYIMVTNYHSDAKRE 876 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJA_ECOLI P0ACY1 Putative NAD(P)H nitroreductase ydjA (1.-.-.-) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 42 MQPWHFF 48 +QPWH F Sbjct: 6103 LQPWHHF 6083 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJE_ECOLI P38055 Inner membrane metabolite transport protein ydjE (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 47 KLVSNGWS 54 + +SNGWS Sbjct: 1695 RYISNGWS 1718 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJF_ECOLI P77721 Uncharacterized HTH-type transcriptional regulator ydjF (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -1 Query: 171 MSCKGLDIN 179 +SC +DIN Sbjct: 4003 ISCFSIDIN 3977 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJG_ECOLI P77256 Uncharacterized oxidoreductase ydjG (1.-.-.-) (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.18, Method: Compositional matrix adjust. Identities = 13/41 (31%), Positives = 18/41 (43%) Frame = +2 Query: 61 FGNSEVIVGQALKKLPREQVVVETKCGIVWERKGSLFNKVG 101 G EV + LPR ++V IVW+R K+G Sbjct: 1166 IGRLEVQAARDDSALPR--LIVRAPYAIVWQRLPPALAKIG 1282 Score = 21.2 bits (43), Expect = 0.29, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 9/19 (47%) Frame = +2 Query: 133 YMTHWQSVPPFFTPIAETV 151 Y WQ +PP I TV Sbjct: 1235 YAIVWQRLPPALAKIGMTV 1291 Score = 16.9 bits (32), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +2 Query: 192 YSILDRAMENELLPLC 207 +S + M+NE LP+ Sbjct: 842 WSQITTVMQNESLPIA 889 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJH_ECOLI P77493 Uncharacterized sugar kinase ydjH (2.7.1.-) (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJI_ECOLI P77704 Uncharacterized protein ydjI (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.34, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%) Frame = +1 Query: 229 IHTELCQAAMVAVKENQDQPFLHL 252 + TEL Q ++ + D PF+H+ Sbjct: 6886 LRTELSQHGILPEEWGGDSPFVHV 6957 Score = 19.2 bits (38), Expect = 0.98, Method: Compositional matrix adjust. Identities = 22/84 (26%), Positives = 31/84 (36%), Gaps = 12/84 (14%) Frame = +1 Query: 164 RTGCDSLA------VAIGNQHGVYTSEPQLNFEVVKRVRDAVSVPLVLHGASGISDADIK 217 RTGCD L I N G+ E N E + ++ +V +L + D Sbjct: 7 RTGCDLLPETVVRLAQIPNIIGL--KEATGNLERLSMIKPSVGDNFILLSGDDATGFDFI 180 Query: 218 TAISLGIAKINIH------TELCQ 235 GI + + TELCQ Sbjct: 181 QKGGQGIISVTANVAAGGMTELCQ 252 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJJ_ECOLI P77280 Uncharacterized zinc-type alcohol dehydrogenase-like protein ydjJ (1.-.-.-) (347 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 17/69 (24%), Positives = 29/69 (42%) Frame = +2 Query: 254 APYLVMRGGKIMIVGTVPGDSAINFLKINREVTIQTVFRYANRYPVTIEAISSGRFDVKS 313 P+ + GG+ + VGT KINR+ ++ + + IS GR ++ Sbjct: 3332 GPFFLCLGGEFVHVGT----------KINRD-------NFSTGKSLGTQ-ISRGRIYSRA 3457 Query: 314 MVTHIYDYR 322 + Y YR Sbjct: 3458 PIHTAYLYR 3484 Score = 16.9 bits (32), Expect(2) = 5.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 91 PGVPCGHC 98 PG+ CG+C Sbjct: 3801 PGLLCGYC 3778 Score = 15.4 bits (28), Expect(2) = 5.6, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -1 Query: 93 VPCGHCRYCL 102 +PC R+C+ Sbjct: 3709 IPCHLRRFCI 3680 Score = 16.5 bits (31), Expect = 8.7, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = +2 Query: 2 KNSKAILQVPGTMKIIS 18 +N AILQ +KIIS Sbjct: 485 ENIMAILQKSVMIKIIS 535 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJK_ECOLI P76230 Putative metabolite transport protein ydjK (459 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -2 Query: 155 IGNWSYPLCSLIAMGLTP 172 + W + L SLI + L+ Sbjct: 4926 VSAWHFSLSSLIVITLSS 4873 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJL_ECOLI P77539 Uncharacterized zinc-type alcohol dehydrogenase-like protein ydjL (1.-.-.-) (358 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.8, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -2 Query: 89 GHVCGVCPAC 98 G++C P+C Sbjct: 5397 GYICHAVPSC 5368 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -2 Query: 48 VDSGSDEFNSIRG 60 VDS + FNS +G Sbjct: 789 VDSIREPFNSTKG 751 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJM_ECOLI P64481 Inner membrane protein ydjM (Precursor) (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.017 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.017, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 17/32 (53%) Frame = +1 Query: 98 EGWFIPADALQGMVLGYLSHILADMLTPAGVP 129 +G I A +GM+ +H + + L AG+P Sbjct: 1711 DGQRIQAFDRKGMINNKFNHFIMNRLEAAGIP 1806 Score = 21.2 bits (43), Expect = 0.18, Method: Compositional matrix adjust. Identities = 12/24 (50%), Positives = 14/24 (58%) Frame = -1 Query: 56 SFLGQRLKWISKPIARAFGHRGFT 79 SFL Q L+ I+KP A H FT Sbjct: 5377 SFLLQLLRIIAKPADIAGCHN*FT 5306 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +3 Query: 75 HRGFTHSLLAVFALLATFYLKVP 97 HRG + +L ++ KVP Sbjct: 648 HRG*SCHYSMELTILRKYHSKVP 716 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJN_ECOLI P77529 Uncharacterized symporter ydjN (463 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +2 Query: 438 TLTSQWLK 445 TLT+ W+K Sbjct: 911 TLTTDWIK 934 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJO_ECOLI P76210 Uncharacterized protein ydjO (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.11, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%) Frame = -1 Query: 5 MFSTNLIQSNYGDLNIKSLAFDSF-KERLQSTMT 37 + TNLI + GD+ I S+ F ERL +T Sbjct: 994 LLHTNLITACKGDIFIGSVPFYPIGSERLICILT 893 Score = 20.8 bits (42), Expect = 0.33, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 8/16 (50%) Frame = +2 Query: 69 NYDASKPGAPALSFDT 84 Y SKPG P L T Sbjct: 3779 QYPQSKPGTPLLKI*T 3826 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%) Frame = +3 Query: 209 RKRLGYEVLSFSLQAHSLS 227 +K LGY+ L F SLS Sbjct: 3312 KK*LGYKALFFYALGVSLS 3368 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJX_ECOLI P76219 TVP38/TMEM64 family membrane protein ydjX (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -2 Query: 132 FLILTRLIPLFP 143 FLI + L +FP Sbjct: 2802 FLIFSWLTQIFP 2767 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJY_ECOLI P76220 Uncharacterized protein ydjY (Precursor) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YDJZ_ECOLI P76221 TVP38/TMEM64 family inner membrane protein ydjZ (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.2, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -2 Query: 166 AAGLTSIRFRSFFIAT 181 +AGL S + SFF A Sbjct: 5166 SAGLLSPKLSSFFRAN 5119 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAC_ECOLI P76231 Uncharacterized protein yeaC (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAD_ECOLI P39173 UPF0010 protein yeaD (Unknown protein from 2D-page spots T26/PR37) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -3 Query: 119 FELTQSEETKKFW 131 F LTQ+ + K W Sbjct: 1277 FLLTQAADVAKRW 1239 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAE_ECOLI P76234 Uncharacterized protein yeaE (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = +2 Query: 203 RNGLLKNAV 211 RNGLLK V Sbjct: 5948 RNGLLKKRV 5974 Score = 16.9 bits (32), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +2 Query: 104 TDYLDLYLLHWSGSF 118 T YL++ +L W+ F Sbjct: 2948 TRYLEVVVLDWAYGF 2992 Score = 16.2 bits (30), Expect = 8.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +3 Query: 48 LIDTAEMYADGGAEKV 63 L+ TAE Y D E++ Sbjct: 3612 LLFTAEDYTDYLGERI 3659 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAG_ECOLI P0ACY3 Uncharacterized protein yeaG (644 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = -3 Query: 315 KNNEAFLDRVYIVKVP 330 KNN A + + ++K+P Sbjct: 2708 KNNVANIAVIRVIKLP 2661 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAH_ECOLI P76235 UPF0229 protein yeaH (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.37, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +1 Query: 348 DNWADDSPLCHEILAKK 364 + W DSP H + AKK Sbjct: 6922 EEWGGDSPFVH-VSAKK 6969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAI_ECOLI P76236 Inner membrane protein yeaI (491 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 12/18 (66%), Gaps = 1/18 (5%) Frame = -1 Query: 151 LIQTKSNDVSIFYIF-RQ 167 LIQ SN V+ Y+F RQ Sbjct: 4426 LIQNTSNAVTRAYVFTRQ 4373 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAJ_ECOLI P76237 Uncharacterized protein yeaJ (496 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.0, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 14/31 (45%) Frame = -1 Query: 2 KLHHRMLRHFIAASVIVLTSSFLIFELVASD 32 +L HR+L H + L SFL SD Sbjct: 2290 QLAHRLLSHRLNCHESDLYPSFLTSFYPTSD 2198 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAK_ECOLI P64483 Uncharacterized protein yeaK (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAL_ECOLI P0ACY6 Uncharacterized protein yeaL (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 12/14 (85%) Frame = +1 Query: 135 LIAAGLVSLIVGKQ 148 LI+ GL++LIV +Q Sbjct: 2548 LISIGLIALIVLQQ 2589 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAM_ECOLI P76241 Uncharacterized HTH-type transcriptional regulator yeaM (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = +2 Query: 15 HHEAAVAFCIHAGTDELTSPV 35 HH V +C D L SP+ Sbjct: 2 HHAPVVIYCPKRW*D*LKSPI 64 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 8 NGYEPDR 14 +GYEPD Sbjct: 3116 SGYEPDE 3096 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -2 Query: 65 QYAVWIPGGVE 75 +YAVWI G +E Sbjct: 3477 KYAVWI-GALE 3448 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAN_ECOLI P76242 Inner membrane transport protein yeaN (393 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.56, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = +1 Query: 201 ALHTRGIWRSPLAWQVTL 218 A G W P+A Q+ L Sbjct: 5980 AAENEGKWPEPIAEQIEL 6033 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +2 Query: 336 LSGMAQSVGYLLAACG 351 L+ + + + + LAACG Sbjct: 5180 LASLDRDMAFKLAACG 5227 Score = 16.9 bits (32), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -2 Query: 210 SPLAWQVTL 218 SPL WQ T+ Sbjct: 6933 SPLFWQDTV 6907 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAO_ECOLI P76243 Uncharacterized protein yeaO (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.0, Method: Composition-based stats. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 27 PRGIKKTDL 35 P+GIKK L Sbjct: 3356 PQGIKKKGL 3330 Score = 16.5 bits (31), Expect = 2.5, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 15 SDGYRILV 22 +D YRIL+ Sbjct: 1406 TDSYRILI 1383 Score = 15.4 bits (28), Expect = 5.0, Method: Composition-based stats. Identities = 7/20 (35%), Positives = 9/20 (45%) Frame = -1 Query: 45 TPSTELRKAFHGEVVDYATF 64 TP+ KAF G + F Sbjct: 3439 TPTNLCPKAFTGAEIISVNF 3380 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAP_ECOLI P76245 Probable diguanylate cyclase yeaP (DGC) (2.7.7.65) (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 12/21 (57%) Frame = -2 Query: 198 LARHLNHKIMIAFIDLDNFKL 218 + L H+I+ F +D+F L Sbjct: 1698 IVTELQHQIIRIFSSVDSFSL 1636 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = +3 Query: 69 TVSWDYSLCKRAIDENC 85 ++SW + C R++ +C Sbjct: 2241 SLSWQFRRCDRSL*ASC 2291 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = +2 Query: 92 PDRWGDC 98 P +W DC Sbjct: 1805 PHKWNDC 1825 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAQ_ECOLI P64485 UPF0410 protein yeaQ (82 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAR_ECOLI P64488 Uncharacterized protein yeaR (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAT_ECOLI P76250 Uncharacterized HTH-type transcriptional regulator yeaT (307 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAV_ECOLI P0ABD1 Uncharacterized transporter yeaV (481 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 9.0, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +2 Query: 279 RVSRGRKIKEVIWGLIL 295 R+S K+K IW L L Sbjct: 2570 RLSYCNKVKVRIWALHL 2620 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAW_ECOLI P0ABR7 Putative dioxygenase subunit alpha yeaW (1.14.-.-) (374 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 8/46 (17%) Frame = +3 Query: 75 VRGRDKVLRAFYN--------VCPHRGHQLLSGEGKAKNVITCPYH 112 + GR LR + + +C +Q+ S + ITCPY+ Sbjct: 3447 IPGRQSTLRIYIDNCDGVTVDMCADVSYQV-SAVLDVEEPITCPYN 3581 Score = 17.3 bits (33), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = -2 Query: 202 IVDNYLECYHCGPAHPGFSD 221 +++N ++C H H F+D Sbjct: 6405 LINNLVDCCHTT*FHHCFND 6346 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAX_ECOLI P76254 Putative dioxygenase subunit beta yeaX (1.-.-.-) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.41, Method: Compositional matrix adjust. Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 4/89 (4%) Frame = +1 Query: 78 ENSRGGSRFLHQQV-KVGDRLTISTPNNL---FALIPSARKHLFIAGGIGITPFLSHMAE 133 N + RF+ V ++ DR T+ TP+ + SA+K I G P ++ Sbjct: 514 SNDKDNKRFVADVVSRLFDRTTL*TPSER**SLS*CTSAKKAQCITGD---NPAITA--- 675 Query: 134 LQHSDVDWQLHYCSRNPESCAFRDELVQH 162 W L YC+ C R + V+H Sbjct: 676 -------WNLRYCASITARC--RWQTVRH 735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAY_ECOLI P0AA91 Uncharacterized lipoprotein yeaY (Precursor) (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.082 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.082, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 12/17 (70%) Frame = +2 Query: 144 YKRWHLTQQVIMPPQPI 160 ++RW + +V+MP + I Sbjct: 4013 FRRWKVVSEVVMPTREI 4063 Score = 17.7 bits (34), Expect = 1.8, Method: Composition-based stats. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 93 SRGRIYA 99 SRGRIY+ Sbjct: 3431 SRGRIYS 3451 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEAZ_ECOLI P76256 M22 peptidase homolog yeaZ (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 10/11 (90%) Frame = +3 Query: 142 AVLKPEIVHER 152 AV+KP ++H+R Sbjct: 597 AVMKPILMHQR 629 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = +1 Query: 199 CQMFAEGK 206 CQ AEGK Sbjct: 247 CQRVAEGK 270 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBA_ECOLI P0AFS9 Uncharacterized metalloprotease yebA (3.4.24.-) (ORFU) (440 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = +2 Query: 72 QAAQEDEAIP 81 QAA++D A+P Sbjct: 1184 QAARDDSALP 1213 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBB_ECOLI P24238 Uncharacterized protein yebB (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.43, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +3 Query: 6 PAEYEIGDIVFTC 18 P + IGDI+F C Sbjct: 2676 PYDRYIGDIIFYC 2714 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 9/14 (64%) Frame = +2 Query: 105 YHTGFKYESSRQFC 118 YH G ++ + ++C Sbjct: 3707 YHQGCRWRNDHRYC 3748 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = -1 Query: 33 CWSNH 37 CW NH Sbjct: 4054 CWHNH 4040 Score = 15.8 bits (29), Expect = 8.2, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -3 Query: 26 QISAASN 32 +ISAASN Sbjct: 5423 EISAASN 5403 Score = 15.4 bits (28), Expect = 9.0, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = -1 Query: 159 FLGSIPW 165 F+GS+P+ Sbjct: 952 FIGSVPF 932 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBC_ECOLI P0A8A0 UPF0082 protein yebC (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 10/11 (90%) Frame = +1 Query: 181 KVRDALEAAGL 191 +V DAL++AGL Sbjct: 436 RVEDALKSAGL 468 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBE_ECOLI P33218 Inner membrane protein yebE (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 10/40 (25%), Positives = 15/40 (37%) Frame = -3 Query: 148 IEQPLDPQRLATGVRNEEEALEIYFLSCAAIDIDHFMERS 187 + +PLDP R+ E + C I +E S Sbjct: 2666 LPEPLDPNRVEEAPAPNEAPISAPLPCCNTISAISPIEIS 2547 Score = 17.7 bits (34), Expect = 2.0, Method: Composition-based stats. Identities = 9/16 (56%), Positives = 11/16 (68%) Frame = -1 Query: 166 EALEIYFLSCAAIDID 181 E LEI SC +IDI+ Sbjct: 4015 EGLEI---SCFSIDIN 3977 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = +1 Query: 153 DPQRLATGVRNEEEALE 169 DP L RN+ A++ Sbjct: 1663 DPNYLVLEFRNDTSAMD 1713 Score = 15.8 bits (29), Expect = 7.8, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 180 IDHFMERSYLNAL 192 +DH + SYL L Sbjct: 3049 VDHHPKASYLYEL 3011 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBF_ECOLI P33219 Protein yebF (Precursor) (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.1, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 98 ADIHYQVS 105 AD+ YQVS Sbjct: 3516 ADVSYQVS 3539 Score = 17.3 bits (33), Expect = 1.5, Method: Composition-based stats. Identities = 18/78 (23%), Positives = 32/78 (41%) Frame = +1 Query: 37 DLDAAGIAASVKRDYQQNRVARWADDQKIVGQADPVAWVSLQDIQGKDDKWSVPLTVRGK 96 + +AA + SV+R+ ++ KI A VA + + + KW P+ + + Sbjct: 5881 EAEAAELKRSVEREVRR----------KIEEDAKRVAEEARKMAAENEGKWPEPIAEQIE 6030 Query: 97 SADIHYQVSVDCKAGMAE 114 D H S +A E Sbjct: 6031 LTDYHVTTSQHARAAEDE 6084 Score = 15.8 bits (29), Expect = 3.7, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 8 LGLLLVSA 15 +GLL VSA Sbjct: 5828 IGLLFVSA 5805 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBG_ECOLI P0ACY9 Uncharacterized protein yebG (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBN_ECOLI P76264 UPF0059 membrane protein yebN (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = +1 Query: 24 KGATLHKPKFSEA 36 K LH P SEA Sbjct: 1972 KNDQLHDPIVSEA 2010 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBO_ECOLI P64499 Uncharacterized protein yebO (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBQ_ECOLI P76269 Uncharacterized transporter yebQ (457 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 15/25 (60%) Frame = -3 Query: 144 INSFIVAVSSAAGPTIAAAILSIAS 168 +NS A+ S P+ +AAIL +S Sbjct: 6035 VNSICSAMGSGHLPSFSAAILRASS 5961 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBR_ECOLI P76270 UPF0067 protein yebR (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.46, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 16/25 (64%) Frame = +1 Query: 10 LNRDFNALMAGETSFLATLANTSAL 34 +NRD ++ GET +A LAN A+ Sbjct: 6268 VNRD---VIIGETVTVAELANKMAV 6333 Score = 17.7 bits (34), Expect = 1.4, Method: Compositional matrix adjust. Identities = 13/44 (29%), Positives = 19/44 (43%) Frame = -1 Query: 6 FYADLNRDFNALMAGETSFLATLANTSALLYERLTDINWAGFYL 49 F D+N DFN L FL + ++ L + W GF + Sbjct: 3994 FSIDINPDFNFLFMF---FLGRCR*CNF*CFKNL--LTWKGFLI 3878 Score = 15.0 bits (27), Expect = 8.8, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 12/26 (46%) Frame = -2 Query: 23 SFLATLANTSALLYERLTDINWAGFY 48 SFL + + ++ I AGFY Sbjct: 189 SFLYKIKTCRIITAQQNKIITNAGFY 112 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBS_ECOLI P0AD03 Inner membrane protein yebS (427 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 81 PFAWGEPLLHI 91 PF WG P L + Sbjct: 1816 PFVWGYPQLQV 1784 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 41 PEINSHQSAYCPR 53 P INS + CP+ Sbjct: 3454 PGINSTPTNLCPK 3416 Score = 17.3 bits (33), Expect = 6.8, Method: Compositional matrix adjust. Identities = 16/69 (23%), Positives = 26/69 (37%), Gaps = 3/69 (4%) Frame = -2 Query: 82 FAWG-EPLLHIWLLGI-RIDANVMQGIWQMTKQGDAI-TGSMVFFCVIGAPLILVTSIAY 138 F +G P I+ R +N + + +T T FC+ + L+ S + Sbjct: 6021 FGYGFRPFTFIFCCHFTRFFSNPFRVFFYLTAHFSFYRTFQFSRFCLTAGLVTLLLSRQF 5842 Query: 139 LWFGNRLGM 147 F NRL Sbjct: 5841 FLFYNRLTF 5815 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBT_ECOLI P76272 Uncharacterized protein yebT (877 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBV_ECOLI P64503 Uncharacterized protein yebV (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.67, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = -3 Query: 18 HGESPGDRTLTIPC 31 +GESP + IPC Sbjct: 6947 NGESPPHSSGRIPC 6906 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBW_ECOLI P76275 Uncharacterized protein yebW (63 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.0, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = +2 Query: 28 QCLYSMSDQRIRQG 41 CL + ++RQG Sbjct: 6575 HCLIAFVRPKLRQG 6616 Score = 15.8 bits (29), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -3 Query: 2 FALVLFVC 9 FAL LF C Sbjct: 5783 FALSLFAC 5760 Score = 13.5 bits (23), Expect = 7.7, Method: Composition-based stats. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -1 Query: 22 VYNTEQQCLYSMSDQRIR 39 +YN +CL S + + R Sbjct: 4219 LYNNLFRCLGSYAVKNYR 4166 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBY_ECOLI P64506 Uncharacterized protein yebY (Precursor) (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEBZ_ECOLI P76278 Inner membrane protein yebZ (290 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 205 GVLNALLIT 213 G+L+ALLI Sbjct: 450 GILDALLIN 424 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECA_ECOLI P0AD05 Uncharacterized protein yecA (221 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECC_ECOLI P37774 Uncharacterized amino-acid ABC transporter ATP-binding protein yecC (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = -1 Query: 165 VILFDEPTSALDPELVGEVLNTI 187 +I+ + P+LV LNT Sbjct: 4708 IIIPQNDINTFSPQLVRHSLNTC 4640 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECD_ECOLI P0ADI7 Isochorismatase family protein yecD (3.-.-.-) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.31, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = +1 Query: 86 HPAALGATDSDIEIIKRQWG 105 HP L A ++II WG Sbjct: 3592 HPQVLSACCLPLKIILTIWG 3651 Score = 16.5 bits (31), Expect = 4.4, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +1 Query: 78 VLPENW 83 +LPE W Sbjct: 6913 ILPEEW 6930 Score = 15.8 bits (29), Expect = 6.6, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 11/31 (35%) Frame = -1 Query: 52 FLVRVGWSADYAEALKQPVDAPSPAKVLPEN 82 L VGW P P +LPE+ Sbjct: 6823 LL*HVGWPRSSVA*PHHRPQQPKPRYLLPEH 6731 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECE_ECOLI P37348 Uncharacterized protein yecE (272 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECF_ECOLI P0AD07 Uncharacterized protein yecF (74 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECH_ECOLI P46887 Uncharacterized protein yecH (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.0, Method: Composition-based stats. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -3 Query: 20 YTHASLEAA 28 + HA+LEA+ Sbjct: 5099 HDHAALEAS 5073 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECJ_ECOLI P0AD10 Uncharacterized protein yecJ (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECM_ECOLI P52007 Protein yecM (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.45, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 20/30 (66%) Frame = +1 Query: 15 SDLPRFIHALDELSRRLGLNITPLTADHIS 44 +L I A +++++R+G+ + P + D++S Sbjct: 2251 GNLGGVIEAYEQVAKRIGVPLAPFS-DNVS 2337 Score = 16.5 bits (31), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 10/21 (47%) Frame = -3 Query: 72 INGRPICLFKLHEPVQVAHWQ 92 ING I + ++ +A W Sbjct: 3509 INGDAIAVIDINTQCGLAPWN 3447 Score = 16.2 bits (30), Expect = 5.4, Method: Compositional matrix adjust. Identities = 3/10 (30%), Positives = 8/10 (80%) Frame = -3 Query: 4 WQSIDELQDI 13 W+++ + QD+ Sbjct: 4982 WRTLHQFQDV 4953 Score = 16.2 bits (30), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 4 WQSIDELQDIAS 15 WQ +LQ IAS Sbjct: 5408 WQQRSQLQLIAS 5443 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECN_ECOLI P64515 Inner membrane protein yecN (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.1, Method: Composition-based stats. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +3 Query: 101 RSGMSATWC 109 RSG + T+C Sbjct: 5886 RSG*TETFC 5912 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECR_ECOLI P76308 Uncharacterized protein yecR (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.12, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -3 Query: 70 VPFGQPVGNCSLFAGSL 86 +P G P CSL S+ Sbjct: 2504 LPMGSPHKKCSLLCASI 2454 Score = 17.7 bits (34), Expect = 0.80, Method: Composition-based stats. Identities = 7/19 (36%), Positives = 13/19 (68%) Frame = -1 Query: 60 ACQQEGYTHAVPFGQPVGN 78 AC+ + + +VPF P+G+ Sbjct: 970 ACKGDIFIGSVPF-YPIGS 917 Score = 14.6 bits (26), Expect = 7.5, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 4/6 (66%) Frame = -1 Query: 99 HHSAFP 104 HH FP Sbjct: 4888 HHIKFP 4871 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECS_ECOLI P0AFT2 Inner membrane amino-acid ABC transporter permease protein yecS (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -3 Query: 119 WEAAASIGMTP 129 W A+ GMTP Sbjct: 6809 WMASIVCGMTP 6777 Score = 16.2 bits (30), Expect = 6.9, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +3 Query: 49 WPVRWLARF 57 W V+WL + Sbjct: 4029 WSVKWLCQH 4055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YECT_ECOLI P76296 Uncharacterized protein yecT (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDA_ECOLI P0AA70 Uncharacterized inner membrane transporter yedA (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDD_ECOLI P31063 Uncharacterized lipoprotein yedD (Precursor) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.21, Method: Composition-based stats. Identities = 10/24 (41%), Positives = 14/24 (58%) Frame = -3 Query: 114 ERVDRPTAECAAALDKAPLPTPLP 137 E +D E A A ++AP+ PLP Sbjct: 2660 EPLDPNRVEEAPAPNEAPISAPLP 2589 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDE_ECOLI P31064 UPF0394 inner membrane protein yedE (401 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +1 Query: 342 DDFAPALATDWDKINLLK 359 D+F+P WDK L K Sbjct: 2176 DEFSPDGCRLWDKKTLEK 2229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDF_ECOLI P0AA31 UPF0033 protein yedF (77 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 4.1, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +3 Query: 65 QQDGPTIRY 73 ++DG +RY Sbjct: 6666 KRDGDLLRY 6692 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDI_ECOLI P46125 Inner membrane protein yedI (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -1 Query: 150 TDFILSAEIVAIT 162 TDF+ I+AIT Sbjct: 1171 TDFVCVLSIIAIT 1133 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%) Frame = +1 Query: 29 AAKKTAGVLGDDLSLNA 45 +AKK + GD+ ++ A Sbjct: 625 SAKKAQCITGDNPAITA 675 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDJ_ECOLI P46144 Uncharacterized protein yedJ (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.26, Method: Compositional matrix adjust. Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 3/29 (10%) Frame = +2 Query: 128 RLEALGA-IGL--ARVFAVSGALGVALFD 153 R++ +GA +G+ ARV AVS LG D Sbjct: 4601 RIDPIGACVGMRGARVQAVSNELGGERID 4687 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 12/28 (42%) Frame = -2 Query: 17 HHQHQDAAHDVCHFRRVWATAQKLAADD 44 HH D CHF R ++ + D+ Sbjct: 6363 HHCFNDLRAFNCHFIR*FSNGDRFTNDN 6280 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDK_ECOLI P76318 Uncharacterized protein yedK (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/39 (20%), Positives = 18/39 (46%) Frame = +2 Query: 74 INARVETAATSRMFKPLWQHGRAICFADGWFEWKKEGDK 112 I A ++ + ++ LW A C + ++ + GD+ Sbjct: 491 IMAILQKSVMIKIISVLWLMLLAACSTEQRYKRQVSGDE 607 Score = 17.3 bits (33), Expect = 3.2, Method: Compositional matrix adjust. Identities = 10/38 (26%), Positives = 15/38 (39%) Frame = +2 Query: 31 EPIGRYNVAPGTKVLLLSERDEHLHLDPVFWGYAPGWW 68 +PIG G +V +S +D V W P + Sbjct: 4607 DPIGACVGMRGARVQAVSNELGGERIDIVLWDDNPAQF 4720 Score = 16.2 bits (30), Expect = 6.8, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 12/30 (40%) Frame = -1 Query: 131 IGSTPFERGDEAEGFLIVTAAADQGLVDIH 160 IGS PF I+T + LV H Sbjct: 949 IGSVPFYPIGSERLICILTIGDGEALVLHH 860 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDL_ECOLI P76319 Uncharacterized N-acetyltransferase yedL (2.3.1.-) (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.8, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +1 Query: 44 NPTVTFWSV 52 NP +T W++ Sbjct: 658 NPAITAWNL 684 Score = 15.8 bits (29), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 5/9 (55%) Frame = -2 Query: 42 LRNPTVTFW 50 LRN FW Sbjct: 2841 LRNIAARFW 2815 Score = 15.0 bits (27), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 46 TVTFWSVW 53 T+T ++VW Sbjct: 4215 TITCFAVW 4192 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDM_ECOLI P76322 Uncharacterized protein yedM (116 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDN_ECOLI P76321 Putative uncharacterized protein yedN (173 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 15/27 (55%) Frame = +2 Query: 5 LVRLFKCVELHNSKLDLTDLHLGSLPP 31 L+RL C + K+ + LHL +PP Sbjct: 2564 LLRLSYC---NKVKVRIWALHLERVPP 2635 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 9/66 (13%) Frame = -1 Query: 35 WIEVLYLRH--NGLATIQIPKFCKELELDFNNYMVFPKVS-------DGITQVSVDNNLI 85 W++ +YL A +Q P L L + +V VS G V++++ Sbjct: 6013 WVQAIYLHFLLPFYALLQQP--VSRLLLSYGALLVLQNVSVQPLLPHGGSCHFVVESSIF 5840 Query: 86 SRVDSS 91 S + S+ Sbjct: 5839 SFLQSA 5822 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDQ_ECOLI P76330 Cellulose synthesis regulatory protein (564 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.8, Method: Compositional matrix adjust. Identities = 15/48 (31%), Positives = 21/48 (43%) Frame = +1 Query: 453 DRVLSHAAGLISSSLRAQDVAGRVGGEEFCVILPGASLTEAAEVAERI 500 D + G+IS + A AG G E C + TEA + ER+ Sbjct: 172 DFIQKGGQGIISVT--ANVAAG--GMTELCQRVAEGKFTEAGRLNERL 303 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDR_ECOLI P76334 Inner membrane protein yedR (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 9.7, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +2 Query: 32 RLSRSPGGKLALWAFY 47 RLS K+ +WA + Sbjct: 2570 RLSYCNKVKVRIWALH 2617 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDS_ECOLI P76335 Putative outer membrane protein yedS (Precursor) (397 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.48 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.48, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 13/25 (52%) Frame = +2 Query: 309 DFGLRPSIAYLQSKGKDLGGWAHDG 333 DFG R S+ + SKG L +D Sbjct: 1418 DFGNRSSVQFTDSKGHTLNQQQNDA 1492 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDV_ECOLI P76339 Putative sensor-like histidine kinase yedV (2.7.13.3) (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDW_ECOLI P76340 Probable transcriptional regulatory protein yedW (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +1 Query: 95 NDYLVKPFSF 104 ND+ ++PF F Sbjct: 3316 NDWAIRPFFF 3345 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 12/24 (50%) Frame = +2 Query: 40 ALKDDYALIILDIMLPGMDGWQIL 63 A +DD AL L + P WQ L Sbjct: 1187 AARDDSALPRLIVRAPYAIVWQRL 1258 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDY_ECOLI P76342 UPF0190 protein yedY (Precursor) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +2 Query: 239 LIVPWKYGFKG 249 +++ W YGFK Sbjct: 2966 VVLDWAYGFKS 2998 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -1 Query: 76 LPLTPADKVSGYNN 89 +P+T D+ Y+N Sbjct: 1360 IPITAVDRAISYSN 1319 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEDZ_ECOLI P76343 UPF0191 membrane protein yedZ (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.72, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 14/16 (87%) Frame = +2 Query: 186 LLALRYKKLRSLFNRL 201 LLA++ K+ ++L+NR+ Sbjct: 6200 LLAVKAKESQALYNRV 6247 Score = 18.1 bits (35), Expect = 1.5, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 11/14 (78%) Frame = +2 Query: 78 RLLGLWCFAWATLH 91 ++L +WC++ T+H Sbjct: 1661 KILIIWCWSSVTIH 1702 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 16/32 (50%) Frame = -2 Query: 180 AGLAVLLLALRYKKLRSLFNRLRKQVHNKLSV 211 AGL LLL+ ++ +NRL V + V Sbjct: 5877 AGLVTLLLS---RQFFLFYNRLTFCVSDFFRV 5791 Score = 17.3 bits (33), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -1 Query: 36 GADPVKDIQHF 46 G +PV I+H+ Sbjct: 2998 GFEPVSPIEHY 2966 Score = 16.5 bits (31), Expect = 4.7, Method: Composition-based stats. Identities = 11/33 (33%), Positives = 21/33 (63%), Gaps = 2/33 (6%) Frame = +2 Query: 113 ITRPYLTLGIIS--WVILLALAFTSTQAMQRKL 143 I + + + IIS W++LLA A ++ Q +R++ Sbjct: 500 ILQKSVMIKIISVLWLMLLA-ACSTEQRYKRQV 595 Score = 15.4 bits (28), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -2 Query: 82 LWCFAW 87 L+CF+W Sbjct: 5760 LFCFSW 5743 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEA_ECOLI P33011 Inner membrane protein yeeA (352 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.033 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.033, Method: Compositional matrix adjust. Identities = 17/62 (27%), Positives = 31/62 (50%) Frame = +2 Query: 196 RPRLESHLQKLLTDAVKMRGLIAPASKETRIPKSIYEGIQTINRNLVCMLELQINAYWAT 255 RP+L Q+ + + GLI K P I++G+ +++ + +L QI+ +W Sbjct: 6596 RPKLRQGKQE---GSHSISGLITLKPKTGW*PS*IHQGMLRLHQCVHEVLRQQISWFWLL 6766 Query: 256 RP 257 RP Sbjct: 6767 RP 6772 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEED_ECOLI P33014 UPF0033 protein yeeD (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.55, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 5/9 (55%) Frame = -3 Query: 47 PQWAAEEGH 55 P W+ GH Sbjct: 5123 PMWSVHSGH 5097 Score = 16.5 bits (31), Expect = 1.4, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 21/49 (42%) Frame = -2 Query: 9 VTQVCPFPLIEAKAALAEMVSGDELVIEFDCTQATEAIPQWAAEEGHAI 57 +TQ+ FPL LA ++ D+ T + Q++ GH + Sbjct: 2784 LTQI--FPLTALTVLLATHIT*DQ-------TNNKK*CRQYSGHTGHKV 2665 Score = 15.0 bits (27), Expect = 3.6, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 7/17 (41%) Frame = -2 Query: 39 CTQATEAIPQWAAEEGH 55 CT + W EGH Sbjct: 6726 CTH*CKRSMPWCI*EGH 6676 Score = 14.6 bits (26), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +2 Query: 17 LIEAKAALAEMVS 29 LIE KAA+ + S Sbjct: 4529 LIEIKAAIRDPAS 4567 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEE_ECOLI P33015 UPF0394 inner membrane protein yeeE (352 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.67, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 15/28 (53%) Frame = +1 Query: 217 LSEATGRMFGLGITSPTANILQFLVAGD 244 L EATG + L + P+ L++GD Sbjct: 73 LKEATGNLERLSMIKPSVGDNFILLSGD 156 Score = 20.0 bits (40), Expect = 0.67, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 13/25 (52%) Frame = -2 Query: 19 MQRGRFCLTGGFRDMYIVKNNRMFY 43 Q RFCLT G + + + +FY Sbjct: 5904 FQFSRFCLTAGLVTLLLSRQFFLFY 5830 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 15/29 (51%) Frame = -2 Query: 44 ALLIAISVQSVGVFALIQAGLLTYEAGAF 72 A L AIS + F AGLL+ + +F Sbjct: 5217 ANLNAISRSKLAKFNKSSAGLLSPKLSSF 5131 Score = 16.2 bits (30), Expect = 9.5, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 7/11 (63%) Frame = +3 Query: 326 ILGVWTASWLV 336 ++G W+ WL Sbjct: 4017 VVGKWSVKWLC 4049 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEF_ECOLI P0AA47 Inner membrane transport protein yeeF (452 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 1/41 (2%) Frame = -3 Query: 73 VRRYPSAGSAYTYAQKSISPTVGF-MVGWSSLLDYLFAPMI 112 ++ P A S + + +SPT+GF M+ S F PMI Sbjct: 179 IKSKPVASSPLSRIK--LSPTLGFIMLSRSKFPVASFNPMI 63 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%) Frame = -2 Query: 133 FVVALVAFMTAFNLRSLKSVAN 154 FVV +F + RS KSV N Sbjct: 1839 FVV*KQSFHLCGDTRSFKSVHN 1774 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEJ_ECOLI P76347 Uncharacterized protein yeeJ (2358 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 1.9, Method: Composition-based stats. Identities = 12/41 (29%), Positives = 20/41 (48%) Frame = +2 Query: 811 KQEDNTVEVTLENGVKQTLIVSFVGDSSTAQVDLQKSKNEV 851 KQ + + + + QTLI S + + + V QKS E+ Sbjct: 6818 KQRKSPLSLLSTK*INQTLIQSVLEQNYLSTVSCQKSGEEI 6940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEL_ECOLI P76349 Putative uncharacterized protein yeeL (350 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEN_ECOLI P0A8A2 UPF0082 protein yeeN (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = -2 Query: 215 FEGLVDAL 222 F+G++DAL Sbjct: 456 FQGILDAL 433 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEO_ECOLI P76352 Uncharacterized transporter yeeO (547 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -2 Query: 320 IIWEVMGIGIPASVE 334 +IW + +GI SVE Sbjct: 4164 LIWSSI*VGISDSVE 4120 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEP_ECOLI P76359 Putative uncharacterized protein yeeP (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 6/34 (17%) Frame = +2 Query: 43 WPATYCSR------VSGYRDILPELDLVLWLIKA 70 P + SR + +R +PE+D L IKA Sbjct: 4445 GPQLFISRSRPEMLIELFRIEVPEIDEELIEIKA 4546 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEER_ECOLI P76361 Inner membrane protein yeeR (510 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.057 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.057, Method: Compositional matrix adjust. Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 6/41 (14%) Frame = -2 Query: 27 STASALAGLILLCLF------GPALLAGYITERITRLFHIR 61 ST + ++ IL CL P LL GY R LFH++ Sbjct: 3867 STTARISLFILSCLV*IFKSGVPGLLCGYCLVRTLHLFHLQ 3745 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEES_ECOLI P76362 Putative radC-like protein yeeS (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 11/24 (45%) Frame = -1 Query: 112 LITERLVQALGLVDIRVPDHLIVG 135 ++ RL L LVD P H G Sbjct: 2821 VLEARLFSHL*LVDSDFPTHCFDG 2750 Score = 16.5 bits (31), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -2 Query: 13 LKTLDRHLHEP 23 L LDR H+P Sbjct: 6810 LDGLDRLWHDP 6778 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEET_ECOLI P64521 Uncharacterized protein yeeT (73 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEU_ECOLI P76364 Uncharacterized protein yeeU (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.0, Method: Composition-based stats. Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%) Frame = -2 Query: 7 GTTLPDDNHDRPWWGLPCT-VTPCFGARLV 35 G+ P+ + R GL T + PC +RLV Sbjct: 1380 GSCAPNASQSRLLIGL*VTAMLPCCRSRLV 1291 Score = 16.5 bits (31), Expect = 2.3, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 16/33 (48%) Frame = -1 Query: 56 DADAYHLDQAFPLLMKQLELMLTSGELNPRHQH 88 A ++HL +PLL L L+ + N H H Sbjct: 247 KAPSFHLLPHWPLLK*SLALLFV*NQ-NLSHHH 152 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEV_ECOLI P64524 Uncharacterized protein yeeV (124 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.1, Method: Composition-based stats. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = +3 Query: 14 SRPSPVEIWQILLSRLLDQH 33 SRPS V W + + L QH Sbjct: 4005 SRPSVVGKWSV---KWLCQH 4055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEW_ECOLI P64526 Putative uncharacterized protein yeeW (64 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.0, Method: Composition-based stats. Identities = 7/22 (31%), Positives = 12/22 (54%) Frame = +1 Query: 38 NGYSLRVVDDRDSTETPATYAS 59 NGY ++ +D+D+ A S Sbjct: 493 NGYITKISNDKDNKRFVADVVS 558 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEX_ECOLI P0A8M6 UPF0265 protein yeeX (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEY_ECOLI P76369 Uncharacterized HTH-type transcriptional regulator yeeY (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = +2 Query: 270 WIGWN 274 WI WN Sbjct: 926 WIKWN 940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEEZ_ECOLI P0AD12 Protein yeeZ (Precursor) (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -1 Query: 79 RRSGPGDE 86 RRS PGDE Sbjct: 3613 RRSRPGDE 3590 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEFG_ECOLI P37749 Uncharacterized protein yefG (GalF transferase) (330 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 12/27 (44%) Frame = -3 Query: 104 GGGSDSVRLATCDMVISHNPQMTKYLS 130 G +RLATC P++ + S Sbjct: 2318 GANGTPIRLATCS*ASITPPKLPRKRS 2238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEFI_ECOLI P37751 Uncharacterized protein yefI (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +1 Query: 29 TNNKENVSFIALVHS 43 +N+K+N F+A V S Sbjct: 514 SNDKDNKRFVADVVS 558 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEFM_ECOLI P69346 Antitoxin yefM (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.9, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 23/47 (48%) Frame = +1 Query: 27 ILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKS 73 +++ R+N LMS + E+A LR+P +M +D K+ Sbjct: 6445 VILRRENELEEALMSDRDMGVAGESA--LRAPVVT--IMGHVDHGKT 6573 Score = 14.2 bits (25), Expect = 7.8, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +2 Query: 56 RSPANARRLMDSIDSLKSGK 75 RSP R+ + +LKS K Sbjct: 6296 RSPLLN*RIKWQLKALKSLK 6355 Score = 13.9 bits (24), Expect = 8.6, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 14/28 (50%) Frame = +2 Query: 14 SATMMKAVEDHAPILITRQNGEACVLMS 41 + TM AVE+ +NG+ L+S Sbjct: 4775 AKTMNIAVEEGNSAQAIGRNGQNVRLVS 4858 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGD_ECOLI P36928 Uncharacterized chaperone protein yegD (450 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 13/37 (35%), Positives = 17/37 (45%) Frame = -2 Query: 405 LTGGSARSPLIKKALAEQLPGIPIAGGDDFGSVTAGL 441 LT SARS ++ A L I + F +AGL Sbjct: 5265 LTPCSARSSSVQTPHAANLNAISRSKLAKFNKSSAGL 5155 Score = 16.9 bits (32), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 129 LVCAMMLHIRQQ 140 L+C+ L +RQQ Sbjct: 4796 LLCSSFLRLRQQ 4761 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGE_ECOLI P38097 Uncharacterized protein yegE (1105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 2.3, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 15/27 (55%) Frame = +1 Query: 785 ISAVNDYHFIWEGRVHRVGASAGITLI 811 I A N HF+ + R+G + +TL+ Sbjct: 2455 IEAHNKEHFLCGDPIGRIGTTMYVTLL 2535 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGH_ECOLI P76389 UPF0053 protein yegH (527 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 17/33 (51%) Frame = -3 Query: 366 LNLRVLIRQPLVFPETLPLLPALEQFRNARTHF 398 L+L + + PL FP PAL F+ + T F Sbjct: 524 LSLLIFVI*PLYFPSNQDSKPAL--FKASSTRF 432 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGI_ECOLI P76393 Uncharacterized protein yegI (648 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 91 PKVSGKEPIH 100 PKV+G P H Sbjct: 3113 PKVAGSNPAH 3142 Score = 17.7 bits (34), Expect = 7.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -1 Query: 105 PAHRRQSYPHCAWD 118 P+ R S PH WD Sbjct: 2032 PSQRLYSKPH*QWD 1991 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGJ_ECOLI P76394 Uncharacterized protein yegJ (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.71 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.71, Method: Compositional matrix adjust. Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 9/57 (15%) Frame = +1 Query: 43 RKETDKFIEVMNKKD---ADTFAVKAPIT------DHGRTEHFWLTDVTYSNGMFIG 90 R+E + +M+ +D A A++AP+ DHG+T L D S + G Sbjct: 6454 RRENELEEALMSDRDMGVAGESALRAPVVTIMGHVDHGKT---SLLDCIRSTKVAAG 6615 Score = 16.9 bits (32), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 8/18 (44%) Frame = +1 Query: 71 GRTEHFWLTDVTYSNGMF 88 G T+H V NGM Sbjct: 6625 GITQHIGAYHVETENGMV 6678 Score = 15.0 bits (27), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 89 IGVISN 94 IG+ISN Sbjct: 1871 IGIISN 1854 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGK_ECOLI P76395 Uncharacterized protein yegK (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.043 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.043, Method: Compositional matrix adjust. Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 8/96 (8%) Frame = +1 Query: 33 LNDQQPLLSVFVADGAGSVSQGGEGAM-LAVNEA---MAYMSQKVQGGELG----LNDVL 84 + D LLS A G + +GG+G + + N A M + Q+V G+ LN+ L Sbjct: 124 VGDNFILLSGDDATGFDFIQKGGQGIISVTANVAAGGMTELCQRVAEGKFTEAGRLNERL 303 Query: 85 ATNMVLTIRQRLFAEAEAKELAVRDFACTFLGLISS 120 + + + LF EA +AV+ +AC LGLI++ Sbjct: 304 -----MPLHKELFIEANP--IAVK-WACKRLGLITA 387 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = -3 Query: 4 RLVYASTVGTSHISADLPCQD 24 R+ A + ISA LPC + Sbjct: 2642 RVEEAPAPNEAPISAPLPCCN 2580 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGL_ECOLI P76396 Uncharacterized protein yegL (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 13/54 (24%), Positives = 21/54 (38%), Gaps = 1/54 (1%) Frame = -3 Query: 42 AGLVTFRDELLADPLALKRVELGIV-TFGPVHVEQPFTSAANFFPPILFAQGDT 94 A + R L +PL RVE P+ P + + PI ++ +T Sbjct: 2696 ANIAVIRVIKLPEPLDPNRVEEAPAPNEAPISAPLPCCNTISAISPIEISKKNT 2535 Score = 16.2 bits (30), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = +3 Query: 14 SNPEPRCPCILLLDVSGS 31 +N R PC L SGS Sbjct: 6021 TNRIDRLPCHYLTTRSGS 6074 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -2 Query: 1 MSEQITFATSDF 12 ++TF SDF Sbjct: 5835 FYNRLTFCVSDF 5800 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGP_ECOLI P76402 UPF0339 protein yegP (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGQ_ECOLI P76403 Uncharacterized protease yegQ (3.4.-.-) (453 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -3 Query: 295 FYYCARTAQV 304 F+ CAR A + Sbjct: 2063 FFICARCASL 2034 Score = 17.7 bits (34), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = +2 Query: 349 NYEYGYSVSDRQQFV 363 ++ YG+ R QF+ Sbjct: 2975 DWAYGFKSRPRYQFI 3019 Score = 16.9 bits (32), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 40 NNEFNH 45 NN+FNH Sbjct: 1753 NNKFNH 1770 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGR_ECOLI P76406 Uncharacterized protein yegR (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.8, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +3 Query: 13 FIMSGCAVHN 22 FI SGC +++ Sbjct: 2613 FIWSGCLLNS 2642 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGS_ECOLI P76407 Lipid kinase yegS (2.7.1.-) (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGT_ECOLI P76417 Putative nucleoside transporter yegT (425 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGU_ECOLI P76418 Uncharacterized protein yegU (3.2.2.-) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGV_ECOLI P76419 Uncharacterized sugar kinase yegV (2.7.1.-) (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.047 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.047, Method: Compositional matrix adjust. Identities = 15/42 (35%), Positives = 18/42 (42%) Frame = +2 Query: 40 GCDIELKQQSVNVGGCALNIAVALKRLGIEAGNALPLGQGVW 81 C E + + G A A ALKRL G LPL G + Sbjct: 560 ACSTEQRYKRQVSGDEAYLNAPALKRLNASQGIILPLQHGTY 685 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGW_ECOLI P0ACM5 Uncharacterized HTH-type transcriptional regulator yegW (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 16/25 (64%), Gaps = 2/25 (8%) Frame = -1 Query: 14 ERILAADNTPLYI--KFAETVKNAV 36 ++ILAA T LY+ + +KNA+ Sbjct: 2545 KKILAALRT*LYLFSLWGHHIKNAL 2471 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = -2 Query: 101 FSQQVVLRGKKPDTLWV 117 F Q VLR TLW+ Sbjct: 6924 FWQDTVLR*FCSKTLWI 6874 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +3 Query: 99 RGFSQQVVLRGKKP 112 RGF+ + V +KP Sbjct: 1896 RGFTGEAVRDYRKP 1937 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEGX_ECOLI P76421 Uncharacterized protein yegX (272 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%) Frame = -3 Query: 32 VNFFYST-AVQITDYIHFYGYRPVKSFAIRIPAS 64 VNFF+ST + I F + SFA+ + A Sbjct: 5849 VNFFFSTIGLLFVSAIFF----ALASFALSLFAC 5760 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/7 (100%), Positives = 7/7 (100%) Frame = +3 Query: 158 AVLDVEE 164 AVLDVEE Sbjct: 3540 AVLDVEE 3560 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +3 Query: 97 AFIKATEGEKLV 108 IKA +GE ++ Sbjct: 3705 GIIKAVDGEMII 3740 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHA_ECOLI P33340 Uncharacterized protein yehA (Precursor) (344 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.15 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.15, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 16/25 (64%), Gaps = 3/25 (12%) Frame = -1 Query: 48 YEHNFNDSSCVS---TNTITPMSPS 69 +E NF+ S CVS T+ + MSP+ Sbjct: 3172 FEKNFSRSGCVSRI*TSDLRVMSPT 3098 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 16/65 (24%), Positives = 24/65 (36%), Gaps = 1/65 (1%) Frame = -2 Query: 23 YSELSVQHNLVVQGDFALTQTQMATYEHNF-NDSSCVSTNTITPMSPSDIIVGLYNDTIK 81 +S +++ H + F TQ T H F N C N + + +ND Sbjct: 6507 HSHIAITHQCFFEFIFT-TQDNFMT--HFFSNQLRCFLINNLVDCCHTT*FHHCFNDLRA 6337 Query: 82 LNLHF 86 N HF Sbjct: 6336 FNCHF 6322 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = +3 Query: 179 GVYSFNLTLSYNPITTTCK 197 G++ L+ NP+ +CK Sbjct: 1356 GMH*VRKILN*NPVAISCK 1412 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +2 Query: 230 ILRCKN 235 ILRCKN Sbjct: 1598 ILRCKN 1615 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHB_ECOLI P33341 Uncharacterized outer membrane usher protein yehB (Precursor) (826 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHC_ECOLI P33342 Uncharacterized fimbrial chaperone yehC (Precursor) (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.49, Method: Compositional matrix adjust. Identities = 12/47 (25%), Positives = 26/47 (55%) Frame = -1 Query: 19 LLSLLIFSMVLPAHAGIVIYGTRIIYPAENKEVMVQLMNQGNRSSLL 65 L+SLL+ + ++ A G + G+ YP E ++ ++ G+ +L+ Sbjct: 1006 LISLLLHTNLITACKGDIFIGSVPFYPI-GSERLICILTIGDGEALV 869 Score = 19.6 bits (39), Expect = 0.69, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 11/15 (73%) Frame = -3 Query: 12 RGIKMKGLLSLLIFS 26 +GIK KGL++ FS Sbjct: 3353 QGIKKKGLIAQSFFS 3309 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHD_ECOLI P33343 Uncharacterized protein yehD (Precursor) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 30 LTIKGNIA 37 LTIK N+A Sbjct: 2717 LTIKNNVA 2694 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHE_ECOLI P33344 Uncharacterized protein yehE (Precursor) (93 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHI_ECOLI P33346 Uncharacterized protein yehI (1210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 11/14 (78%) Frame = +1 Query: 357 PIIEDKKLPAQQKA 370 PI+E KKL QQ++ Sbjct: 5824 PIVEKKKLTTQQQS 5865 Score = 19.6 bits (39), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +1 Query: 409 LSAPPKPVID 418 +SAPPKP D Sbjct: 2803 ISAPPKPSSD 2832 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHK_ECOLI P33347 Uncharacterized protein yehK (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHL_ECOLI P33348 Uncharacterized protein yehL (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHM_ECOLI P33349 Uncharacterized protein yehM (759 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHP_ECOLI P33352 Uncharacterized protein yehP (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = -3 Query: 304 LVSDFYEGGSSS 315 LVSDF++ S++ Sbjct: 5486 LVSDFFKPASAN 5451 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = -2 Query: 281 TNIASAVEYGRQLIE 295 TN AV+Y LIE Sbjct: 6291 TNDNVAVDYSNWLIE 6247 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +1 Query: 205 NSRIKRQSEQWQ 216 +S+ RQS +W+ Sbjct: 2737 SSKQHRQSSEWE 2772 Score = 16.9 bits (32), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 12/20 (60%) Frame = -1 Query: 185 ANLQHWHPQHGKLYIESPRF 204 + ++H+H + L I PR+ Sbjct: 2983 SPIEHYHLKVACLPISPPRY 2924 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHQ_ECOLI P33353 Putative uncharacterized protein yehQ (614 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.89, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 14/24 (58%) Frame = -3 Query: 48 IATFSDGVRTQLANGQALKEAQCS 71 I F+D + + ANG ++ A CS Sbjct: 2351 IFLFADTLSEKGANGTPIRLATCS 2280 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHR_ECOLI P33354 Uncharacterized lipoprotein yehR (Precursor) (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.5, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 3/36 (8%) Frame = -3 Query: 42 AITYVYKGDKVLKQSSETK---IQFASIGATTKEDA 74 ++TY+ +L S K + ASI + KED Sbjct: 2531 SVTYIVV--PILPMGSPHKKCSLLCASISSIAKEDC 2430 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHS_ECOLI P33355 Uncharacterized protein yehS (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +2 Query: 113 FRVSMPEI 120 FR+ +PEI Sbjct: 4496 FRIEVPEI 4519 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHT_ECOLI P0AFT5 Uncharacterized response regulatory protein yehT (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHU_ECOLI P0AD14 Inner membrane protein yehU (Precursor) (561 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.4, Method: Compositional matrix adjust. Identities = 15/58 (25%), Positives = 24/58 (41%) Frame = +1 Query: 431 EHVNAYLQIEKARFQSRLQVNIAIPQELSQQQLPAFTLQPIVENAIKHGTSQLLDTGR 488 E Q+EK ++ Q +E + +++ +PIVE K T Q D R Sbjct: 5707 EQAKQVEQVEKKPAKAEEQAKSESAKEANAKKIADTKSKPIVEKK-KLTTQQQSDKTR 5877 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHW_ECOLI P33359 Putative osmoprotectant uptake system permease protein yehW (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +1 Query: 232 ERLVQALSQH 241 ERL LSQH Sbjct: 6880 ERLRTELSQH 6909 Score = 16.2 bits (30), Expect = 7.8, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +3 Query: 68 GTGAGIAVTRP 78 G+G I TRP Sbjct: 6501 GSGG*ICFTRP 6533 Score = 15.8 bits (29), Expect = 8.1, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 10/17 (58%) Frame = -1 Query: 115 QPAIIALILYGVLPVLQ 131 QP L+ YG L VLQ Sbjct: 5959 QPVSRLLLSYGALLVLQ 5909 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHX_ECOLI P33360 Putative osmoprotectant uptake system ATP-binding protein yehX (3.6.3.-) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 15/47 (31%), Positives = 23/47 (48%) Frame = +1 Query: 222 MLTRPANDFVRQFFGRSELGVRLLSLRSVADYVRREERADGEALAEE 268 + T+ +D R+ +EL RSV VRR+ D + +AEE Sbjct: 5845 LTTQQQSDKTRREAEAAELK------RSVEREVRRKIEEDAKRVAEE 5967 Score = 16.2 bits (30), Expect = 9.3, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -2 Query: 273 DALSLFVA 280 DALSLF A Sbjct: 648 DALSLFSA 625 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEHY_ECOLI P33361 Putative osmoprotectant uptake system permease protein yehY (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIA_ECOLI P25889 Uncharacterized protein yeiA (411 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIB_ECOLI P25747 Uncharacterized protein yeiB (385 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.036 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.036, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 17/29 (58%) Frame = -1 Query: 261 WCAFLLQMPRELSAPFQAIGYASLFYGFW 289 C+FLLQ+ R ++ P G + F GF+ Sbjct: 5383 CCSFLLQLLRIIAKPADIAGCHN*FTGFF 5297 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = +3 Query: 166 SAILYEKYWKLH 177 + +LY+KY KL+ Sbjct: 4203 NKLLYKKYAKLN 4238 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIC_ECOLI P30235 Uncharacterized sugar kinase yeiC (2.7.1.-) (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.29, Method: Compositional matrix adjust. Identities = 9/35 (25%), Positives = 19/35 (54%) Frame = -1 Query: 119 AITAEYLAQHGEFIQRAKVIVADCNISEEALAWIL 153 AITA+++ +FIQ + +++ +I +L Sbjct: 1141 AITADFI*AFNQFIQHSTIVMLYLDIRSNHFFLLL 1037 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 14/23 (60%) Frame = -1 Query: 45 NIAQNLALLGNKAWLLSAVGSDF 67 NI+++ GN+ LLS ++F Sbjct: 4150 NISRDFRFGGNRRVLLSLFFTNF 4082 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 14/32 (43%) Frame = +1 Query: 234 ISGESGWSAPIKTNVINVTGAGDAMMAGLASC 265 ++GES AP V+ + G D L C Sbjct: 6505 VAGESALRAP----VVTIMGHVDHGKTSLLDC 6588 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 14/48 (29%), Positives = 20/48 (41%) Frame = +3 Query: 97 YLSLLDNTGEMLVAINDMNISNAITAEYLAQHGEFIQRAKVIVADCNI 144 YLSL +T + + ND+ YL G I R + C+I Sbjct: 2853 YLSLYRSTKKF*IGSNDLK------KCYLQYRGGEIGRHATLRW*CSI 2978 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIE_ECOLI P0ACR4 Uncharacterized HTH-type transcriptional regulator yeiE (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 15/31 (48%) Frame = +1 Query: 55 KRLVVNEHGRLLYPRALALLEQAVEIEQLFR 85 KR +N L A EQA ++EQ+ + Sbjct: 5647 KRTYINTPNAELANTEKAKTEQAKQVEQVEK 5739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIH_ECOLI P62723 UPF0324 inner membrane protein yeiH (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -1 Query: 279 SFHLLPQ 285 SFHLLP Sbjct: 238 SFHLLPH 218 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEII_ECOLI P33020 Uncharacterized sugar kinase yeiI (2.7.1.-) (362 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIM_ECOLI P33024 Inner membrane transport protein yeiM (416 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +2 Query: 136 LNISKIESFVAVTTIFLGQNE 156 LN + ++ VAV L QN+ Sbjct: 1469 LNQQQNDALVAVLRAALNQND 1531 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIN_ECOLI P33025 UPF0724 protein yeiN (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = -2 Query: 160 VVCAGAKSILDLGLTTEYLETF 181 + CA + I +G+TT L TF Sbjct: 4086 ISCAASSVISRVGITTS-LTTF 4024 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 10/18 (55%), Gaps = 2/18 (11%) Frame = -1 Query: 186 IGYQTK--ALPAFFCRTS 201 IG+ T A FCRTS Sbjct: 613 IGFITAHLAFITLFCRTS 560 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIQ_ECOLI P33029 Uncharacterized oxidoreductase yeiQ (1.-.-.-) (488 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -1 Query: 255 EPFIQWVVEDNFVAGRPA 272 EPF +W ++ F+ A Sbjct: 640 EPF*RWCIKIGFITAHLA 587 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIR_ECOLI P33030 Uncharacterized protein yeiR (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIS_ECOLI P64536 Uncharacterized protein yeiS (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.9, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 14 LIPIFC 19 L+P FC Sbjct: 6161 LLPFFC 6144 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIT_ECOLI P76440 Uncharacterized oxidoreductase yeiT (1.-.-.-) (412 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.34, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 16/35 (45%) Frame = -2 Query: 45 GKFIRSIYFRNFKGAAETIRENNALGAVCARVCPT 79 G+FI F +F A T + LG + CP+ Sbjct: 6168 GEFIAFFLFGSFTSPAATTAISFNLGIIFIFCCPS 6064 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 1/19 (5%) Frame = -1 Query: 393 KTGKEAAEAIHHY-LEGAC 410 +TG E I HY L+ AC Sbjct: 3004 RTGFEPVSPIEHYHLKVAC 2948 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIU_ECOLI P76445 Inner membrane protein yeiU (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.69, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 13/26 (50%) Frame = +1 Query: 198 GSMTVILIGLPWVLLTPLSDRLITFF 223 SMT + I L ++ DRLI F Sbjct: 5377 NSMTDVTIKLLAAEISTSVDRLIQQF 5454 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEIW_ECOLI P0AFT8 UPF0153 protein yeiW (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.16, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%) Frame = -2 Query: 48 PLRPKVCAGLQASAEM 63 PLRP CA L +S M Sbjct: 4836 PLRPIACAELPSSTAM 4789 Score = 14.2 bits (25), Expect = 7.2, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 73 TWLIDLEMLTA 83 +WL + LTA Sbjct: 2790 SWLTQIFPLTA 2758 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJA_ECOLI P33913 Uncharacterized protein yejA (Precursor) (604 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 567 WDKFSQPA 574 W+ SQPA Sbjct: 2767 WENLSQPA 2790 Score = 17.7 bits (34), Expect = 7.2, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 14/25 (56%) Frame = -2 Query: 55 QITLSALGTFDNFNRYALRGNPGAR 79 +I +S+ T NFN Y + GAR Sbjct: 5667 RIDVSSFST--NFNLYRFTFSTGAR 5599 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJB_ECOLI P0AFU0 Inner membrane ABC transporter permease protein yejB (364 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 14/21 (66%) Frame = +3 Query: 334 LYIFTLIGLLLNIVSDISYTL 354 +YI G+ +++ +D+SY + Sbjct: 3474 IYIDNCDGVTVDMCADVSYQV 3536 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 11/19 (57%) Frame = -2 Query: 211 NFDSLPWYQKITDYLWHIT 229 N S P++ ++WH+T Sbjct: 5598 NI*SAPYFPLQRKFIWHLT 5542 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJE_ECOLI P33915 Inner membrane ABC transporter permease protein yejE (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.70, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +3 Query: 326 FIGEAVRDAFDPN 338 F GEAVRD P+ Sbjct: 1902 FTGEAVRDYRKPS 1940 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = +3 Query: 240 ALGVSDRSIILRHMLPNAMVAT 261 AL V +L+H +PN ++A Sbjct: 4404 ALEVFCMRYVLKHEVPNYLLAV 4469 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 11/14 (78%) Frame = +2 Query: 142 ISVLFGLMLTLCSS 155 ISVL+ ++L CS+ Sbjct: 530 ISVLWLMLLAACST 571 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 18/29 (62%), Gaps = 2/29 (6%) Frame = +3 Query: 215 WMSLVG--VVRAEFLRTRNFDYIRAAQAL 241 W+SLVG VR + R+ ++ + R ++L Sbjct: 2193 WLSLVG*KDVRKDG*RSLSWQFRRCDRSL 2279 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJF_ECOLI P33916 Uncharacterized ABC transporter ATP-binding protein yejF (529 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.88 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.88, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 16/26 (61%) Frame = -1 Query: 288 RKGILKRIVDHNVVVKNISFTLRAGE 313 R+G L+++ N VVK ++F G+ Sbjct: 6280 RRG*LQQLAY*NSVVKCLAFFCFYGQ 6203 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJG_ECOLI P0AD21 Uncharacterized protein yejG (114 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 5.3, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -1 Query: 33 NGPCGDNSLVALKLLS 48 NG C + + KLL+ Sbjct: 4297 NGSCNNFPFLFTKLLN 4250 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJH_ECOLI P33919 Uncharacterized protein yejH (586 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +1 Query: 274 AEDAALITGDTPG 286 A+ A ITGD P Sbjct: 628 AKKAQCITGDNPA 666 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +2 Query: 20 FRRHKTPAVIVLPT 33 FRR K + +V+PT Sbjct: 4013 FRRWKVVSEVVMPT 4054 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJL_ECOLI P0AD24 UPF0352 protein yejL (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/23 (26%), Positives = 14/23 (60%) Frame = +2 Query: 1 MPQISRYSDEQVEQLLAELLNVL 23 +P+I + +++++L NVL Sbjct: 5045 LPEIDSFDKKRLQELRDRAQNVL 5113 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJM_ECOLI P0AD27 Inner membrane protein yejM (586 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.4, Method: Compositional matrix adjust. Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 1/34 (2%) Frame = +2 Query: 358 LLSDFSMPSVRTQSDEQT-ATQWINWLGRYAQED 390 ++ + S+P Q QT T WI W A ED Sbjct: 860 VMQNESLPIADRQDANQTLTTDWIKW--NRADED 955 Score = 17.7 bits (34), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 10/17 (58%) Frame = -1 Query: 270 LNYSRFEKQMPALAGFA 286 +N+ F+K + GF+ Sbjct: 4969 INFKMFDKHINRCTGFS 4919 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YEJO_ECOLI P33924 Putative uncharacterized outer membrane protein yejO (863 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 6.7, Method: Composition-based stats. Identities = 9/23 (39%), Positives = 15/23 (65%) Frame = +2 Query: 24 SPIALASTVEYGETVDGVVLEKD 46 SP++L ST +T+ VLE++ Sbjct: 6830 SPLSLLSTK*INQTLIQSVLEQN 6898 Score = 17.7 bits (34), Expect = 9.7, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 3/25 (12%) Frame = -2 Query: 344 NNGRANVWAG---TMVNVSVRGNDG 365 N GR N TM+N++ G+DG Sbjct: 6606 NFGRTNAIKQ*SLTMINMTHDGDDG 6532 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAA_ECOLI P17994 Uncharacterized protein yfaA (562 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.2, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -1 Query: 518 FYNAAQTLLMPKLDALS 534 FYN+ + PKL L+ Sbjct: 3868 FYNSQNLFVHPKLPRLN 3818 Score = 17.3 bits (33), Expect = 7.6, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 12/21 (57%) Frame = +3 Query: 279 AGVRFEMGNDGWHSFVALNDE 299 AGV ++GW ++ +L E Sbjct: 1680 AGVP*RYISNGWSTYSSLRSE 1742 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAD_ECOLI P37014 Uncharacterized protein yfaD (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = +2 Query: 244 MTIAERLRQEGH 255 MT+ +R RQ+G+ Sbjct: 1283 MTVTKRDRQQGN 1318 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = -1 Query: 293 ADIPNCH 299 ADI CH Sbjct: 5338 ADIAGCH 5318 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAE_ECOLI P0ABW3 Uncharacterized ferredoxin-like protein yfaE (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.2, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 7/16 (43%) Frame = -2 Query: 59 EPLAFIQPGEILPCCC 74 +P F PCCC Sbjct: 1035 KPSDFTTKAS*FPCCC 988 Score = 15.4 bits (28), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 26 LESHNVAVEYQ 36 + NVAV+Y Sbjct: 6294 FTNDNVAVDYS 6262 Score = 15.0 bits (27), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -2 Query: 45 CRTRLVA 51 CR+RLV Sbjct: 1308 CRSRLVT 1288 Score = 13.9 bits (24), Expect = 8.8, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +3 Query: 12 QLLCQDEHPSLL 23 +L+C + SLL Sbjct: 978 RLVCNSKEISLL 1013 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAH_ECOLI P45505 Putative uncharacterized protein yfaH (68 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.43, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 43 KEKPVEGSPLFLLQM 57 K KPV SPL +++ Sbjct: 176 KSKPVASSPLSRIKL 132 Score = 17.7 bits (34), Expect = 0.54, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 10/12 (83%) Frame = +1 Query: 34 FYRQISLLAKEK 45 F+R+ISL +++ Sbjct: 5008 FFRRISLCTRKR 5043 Score = 15.0 bits (27), Expect = 2.9, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +3 Query: 5 RQGLGIALQPEL 16 ++ + IAL P+L Sbjct: 1185 KRHVTIALYPDL 1220 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAL_ECOLI P45508 Uncharacterized protein yfaL (Precursor) (1250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 15/26 (57%) Frame = -1 Query: 1219 SQRVSLRGSVAWQKGSDDFAQTAGFL 1244 SQR+ + W + +D F++TA + Sbjct: 2029 SQRLYSKPH*QWDRAADHFSKTAQIM 1952 Score = 19.6 bits (39), Expect = 4.2, Method: Composition-based stats. Identities = 11/31 (35%), Positives = 14/31 (45%) Frame = +1 Query: 608 MEITSDVDTRSDAAGHGRDIEMRADGEVAVD 638 +E + + T D GH MRA G A D Sbjct: 6655 VETENGMVTFLDTPGHAAFTSMRARGAQATD 6747 Score = 18.9 bits (37), Expect = 5.8, Method: Composition-based stats. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = -3 Query: 727 SSGTIDISDGTVLRLTG 743 SSG I D +VLR +G Sbjct: 6926 SSGRIPC*DSSVLRRSG 6876 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAP_ECOLI P76462 Uncharacterized protein yfaP (Precursor) (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAQ_ECOLI P76463 Uncharacterized protein yfaQ (Precursor) (549 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +2 Query: 138 LASLTTLKPET 148 ++ L TLKP+T Sbjct: 6638 ISGLITLKPKT 6670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAS_ECOLI P76464 Putative UPF0192 protein yfaS (Precursor) (1534 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 11/12 (91%) Frame = -3 Query: 1499 SQKGQFVLPPAR 1510 +++ Q+VLPPAR Sbjct: 4697 TKRYQYVLPPAR 4662 Score = 20.8 bits (42), Expect = 2.1, Method: Composition-based stats. Identities = 10/31 (32%), Positives = 16/31 (51%) Frame = +1 Query: 93 VRLYRIPDPMAFLRQQKNLHRIVVQPQYLGD 123 VRL +IP+ + NL R+ + +GD Sbjct: 40 VRLAQIPNIIGLKEATGNLERLSMIKPSVGD 132 Score = 20.4 bits (41), Expect = 2.4, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +1 Query: 405 RNGGQGSFRLPENAVAGG 422 + GGQG + N AGG Sbjct: 181 QKGGQGIISVTANVAAGG 234 Score = 20.0 bits (40), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -2 Query: 431 NQVYSSSFRVANYIKPHFEI 450 + +S+ FRV Y+ HF Sbjct: 5973 TRFFSNPFRVFFYLTAHFSF 5914 Score = 18.9 bits (37), Expect = 8.8, Method: Composition-based stats. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = +2 Query: 1231 LADAVANVLTMTLLKKAQ 1248 L D NVLT LKK + Sbjct: 5087 LRDRAQNVLTTLALKKEE 5140 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAT_ECOLI P76466 Uncharacterized protein yfaT (Precursor) (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAV_ECOLI P76470 Inner membrane transport protein yfaV (429 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.74 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.74, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%) Frame = -3 Query: 373 GAVGGFIAPILRVKAETLFASD 394 G + F A ILR + T FAS Sbjct: 6005 GHLPSFSAAILRASSATRFASS 5940 Score = 18.1 bits (35), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = -1 Query: 285 WVAALFGTWLIPRYS 299 WV A++ +L+P Y+ Sbjct: 6013 WVQAIYLHFLLPFYA 5969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAX_ECOLI P77732 Uncharacterized HTH-type transcriptional regulator yfaX (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 13/39 (33%), Positives = 18/39 (46%) Frame = -1 Query: 34 TLGIPKSTAYLLLNELRRQRFLSLDHQENFCLWTRLVEL 72 T+ I STA ++ LRR FC+ R V+L Sbjct: 3742 TMIISPSTALMIPCHLRR-----------FCIAIRNVKL 3659 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 228 EEYRDYLA 235 E+Y DYL Sbjct: 3627 EDYTDYLG 3650 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFAZ_ECOLI P76471 Uncharacterized protein yfaZ (Precursor) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBK_ECOLI P76481 Uncharacterized protein yfbK (575 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.47, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = +2 Query: 390 MRQMLITVAKDVKAQIEFNPAW 411 MRQ+LI K+ K + P W Sbjct: 158 MRQVLILYKKEGKGLFQ*RPMW 223 Score = 20.0 bits (40), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = +2 Query: 174 ASKPIPFAMRYELA 187 A + +PFA RY+++ Sbjct: 944 ADEDVPFAGRYQIS 985 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBL_ECOLI P76482 Uncharacterized protein yfbL (323 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.32, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -1 Query: 260 FIPGIDFSDHLNYWQH 275 + PG D+ D L W H Sbjct: 6133 YFPGCDYGDLLQPWHH 6086 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 291 KQYHLPGDT 299 + +HL GDT Sbjct: 1824 QSFHLCGDT 1798 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBM_ECOLI P76483 Protein yfbM (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +2 Query: 62 AKNDPLSRAVLGEHSLEDGID 82 A DP SRA + + + ID Sbjct: 4547 AIRDPASRAKIAVKTNDKRID 4609 Score = 15.4 bits (28), Expect = 6.9, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = -2 Query: 36 GLRRLDI 42 G+RR+D+ Sbjct: 5676 GIRRIDV 5656 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBN_ECOLI P76484 Uncharacterized protein yfbN (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.2, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%) Frame = -1 Query: 104 AIEYEWDLKRKFWFGFADIQLLPP 127 A+ ++W L + ++GF I PP Sbjct: 100 ALNFQWLLLTR*YWGFELIS--PP 35 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 14/27 (51%) Frame = -1 Query: 193 EITEDDIFKMLIIHCDQLAREVDSILL 219 +IT +F +++I C R ILL Sbjct: 1558 KITAFFLFCIILIQCSA*HRNQRIILL 1478 Score = 15.8 bits (29), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 186 DKAENFH 192 DKA +FH Sbjct: 250 DKAPSFH 230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBO_ECOLI P76485 Uncharacterized protein yfbO (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -1 Query: 71 QAIYHHFL 78 QAIY HFL Sbjct: 6007 QAIYLHFL 5984 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBP_ECOLI P76486 Uncharacterized protein yfbP (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 10/12 (83%) Frame = +3 Query: 140 ALAIQYRRCKKT 151 +L+ Q+RRC ++ Sbjct: 2241 SLSWQFRRCDRS 2276 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 7/11 (63%) Frame = -3 Query: 113 STGRLDDALPL 123 S LDD LPL Sbjct: 3728 SIDSLDDTLPL 3696 Score = 15.8 bits (29), Expect = 9.7, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = +3 Query: 52 HKLPIVCETYHDEWRIV 68 HKLP C+T IV Sbjct: 846 HKLPQ*CKTRASPSPIV 896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBQ_ECOLI P0A959 Uncharacterized aminotransferase yfbQ (2.6.1.-) (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -1 Query: 26 KRLEEEGNKVLKLNIGNPAP 45 +RLE + +L G PAP Sbjct: 1735 RRLEYVDHPLLMYRYGTPAP 1676 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 322 GVSCVKPR 329 G SC+KPR Sbjct: 3264 GSSCIKPR 3287 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = +2 Query: 303 GGRLYEQRNRAWELINDIPGVSCV 326 RL ++ R W L + +SCV Sbjct: 6386 STRLLIRKQRNWLLKKWVIKLSCV 6457 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBR_ECOLI P76491 5'-nucleotidase yfbR (3.1.3.5) (Nucleoside 5'-monophosphate phosphohydrolase) (5'-deoxyribonucleotidase) (199 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -2 Query: 4 SHFFAHLSRLKLIN 17 +HFF++ R LIN Sbjct: 6438 THFFSNQLRCFLIN 6397 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBS_ECOLI P0AFU2 Uncharacterized transporter yfbS (610 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.089 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.089, Method: Compositional matrix adjust. Identities = 32/131 (24%), Positives = 58/131 (44%), Gaps = 7/131 (5%) Frame = +2 Query: 254 RYGANVIGVERWRRFRRVIVNVNGVSE-FRARDVLLIDMSAADVDLRQFCSEQLLEPMVL 312 R G NV V + + ++ +N + E +A IDM +++ + C+ L+E Sbjct: 4829 RNGQNVRLVSQLSGWELNVMTINELKEKCQAETRTAIDMFIEHLEIDEECATVLVE---- 4996 Query: 313 RGEYFSDQALDVGMAEISLIPESEL------IGKSVREIGFRTRYGLNVVGLKRNGVALE 366 E+ S + E++ +PESEL K ++E+ R + L + LK+ + Sbjct: 4997 -AEFSS-------LEELAYVPESELPEIDSFDKKRLQELRDRAQNVLTTLALKKEESFGD 5152 Query: 367 GSLADEPLLLG 377 AD+ L L Sbjct: 5153 NKPADDLLNLA 5185 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBT_ECOLI P77625 Phosphatase yfbT (3.1.3.-) (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 31 RHGLAPEE 38 +HG+ PEE Sbjct: 6904 QHGILPEE 6927 Score = 16.2 bits (30), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 114 RARHKIAG 121 R HK+AG Sbjct: 5388 RCNHKVAG 5411 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBU_ECOLI P0A8W8 UPF0304 protein yfbU (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.3, Method: Composition-based stats. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +3 Query: 29 YRRLQTIIERGY 40 YR+L + +RG+ Sbjct: 5046 YRKLIVLTKRGF 5081 Score = 15.8 bits (29), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = -1 Query: 5 NAQRLILSNQYKMMTML 21 + RLI ++QY +++ Sbjct: 1630 DTTRLIFASQYGSNSVI 1580 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFBV_ECOLI P0A8D9 UPF0208 membrane protein yfbV (151 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCA_ECOLI P0AD30 UPF0721 transmembrane protein yfcA (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 11/14 (78%) Frame = +2 Query: 253 LLYDSHGQEILHWL 266 L++ S +EIL+WL Sbjct: 2855 LIFVSEHKEILNWL 2896 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -2 Query: 164 GSFYALAFVTLCGFNL 179 GSF + A T FNL Sbjct: 6141 GSFTSPAATTAISFNL 6094 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCB_ECOLI P39199 Uncharacterized adenine-specific methylase yfcB (2.1.1.72) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCC_ECOLI P39263 Uncharacterized protein yfcC (506 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +3 Query: 72 AGEPEYHRVQ 81 + P+YHRV+ Sbjct: 48 SSNPQYHRVK 77 Score = 16.9 bits (32), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -2 Query: 473 VDFRNWL 479 VD+ NWL Sbjct: 6273 VDYSNWL 6253 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCD_ECOLI P65556 Uncharacterized Nudix hydrolase yfcD (3.6.-.-) (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.90, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = +1 Query: 151 DEFTPDSLKALALWMKR 167 DEF+PD + LW K+ Sbjct: 2176 DEFSPDGCR---LWDKK 2217 Score = 17.7 bits (34), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 12/24 (50%) Frame = -3 Query: 140 WLTPEEITARCDEFTPDSLKALAL 163 WL ++ R + PD L + ++ Sbjct: 3149 WLREPDLNQRPSGYEPDELPSCSI 3078 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCE_ECOLI P67095 Phosphodiesterase yfcE (3.1.4.-) (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.98, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 11/13 (84%) Frame = -1 Query: 62 EVAHKVIAVRGNC 74 ++AH++++ R NC Sbjct: 2290 QLAHRLLSHRLNC 2252 Score = 16.5 bits (31), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 73 NCDSEVDQMLLHF 85 NC DQ+ ++F Sbjct: 4552 NCRLNFDQLFVNF 4514 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +2 Query: 116 ALNQND 121 ALNQND Sbjct: 1514 ALNQND 1531 Score = 15.4 bits (28), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -3 Query: 45 NALPEGYAPAKV 56 N P GY P ++ Sbjct: 3128 NQRPSGYEPDEL 3093 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCF_ECOLI P77544 Uncharacterized GST-like protein yfcF (214 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -2 Query: 153 LVLGQPNLFG 162 +V+GQ +LFG Sbjct: 6045 MVIGQFDLFG 6016 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 15/37 (40%) Frame = +1 Query: 3 KPAITLWSDAHFFSPYVLSAWVALQEKGLSFHIKTID 39 PAIT W+ + S W ++ + + TI Sbjct: 658 NPAITAWNLRYCASITARCRWQTVRHSATNSTLGTIK 768 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCG_ECOLI P77526 Uncharacterized GST-like protein yfcG (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 4/51 (7%) Frame = +1 Query: 12 GHKITLF----LEEAELDYRLIKVDLGKGGQFRPEFLRISPNNKIPAIVDH 58 GHK+ L LEEA + R D+G G+ LR +P I VDH Sbjct: 6436 GHKVILRRENELEEALMSDR----DMGVAGES---ALR-APVVTIMGHVDH 6564 Score = 15.8 bits (29), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = +2 Query: 15 ITLFLEEAELDYRLIKV 31 I +F+E E+D V Sbjct: 4937 IDMFIEHLEIDEECATV 4987 Score = 15.4 bits (28), Expect = 9.3, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +2 Query: 74 AILLYLAEKTGLF 86 ++LY E GLF Sbjct: 167 VLILYKKEGKGLF 205 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCH_ECOLI P77775 Epimerase family protein yfcH (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.31, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 13/22 (59%) Frame = +2 Query: 203 DMVNGILWLLDNELRGPFNMVS 224 D + GIL+ + E RGP +S Sbjct: 4400 DRIRGILYEIRPEARGPQLFIS 4465 Score = 20.8 bits (42), Expect = 0.38, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 14/25 (56%) Frame = +2 Query: 271 ALPKRLEEAGFAFRWYDLEEALADV 295 ALP+ + A +A W L ALA + Sbjct: 1205 ALPRLIVRAPYAIVWQRLPPALAKI 1279 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 8/47 (17%) Frame = -1 Query: 189 IGSGRQYLAWIH-----IDDMV---NGILWLLDNELRGPFNMVSPYP 227 + + R YL+W H + ++ N I +R N SP+P Sbjct: 4768 VNNDRSYLSWRHSVKNELSRIIIPQNDINTFSPQLVRHSLNTCSPHP 4628 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 14/26 (53%) Frame = -1 Query: 11 LIGRHLIPRLLELGHQITVVTRNPQK 36 L+ HL+ L+ H + + R+P + Sbjct: 6745 LLPEHLVHALM*TQHALVYLRRSPSR 6668 Score = 17.3 bits (33), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 147 IACRAQSDKTR 157 + + QSDKTR Sbjct: 5845 LTTQQQSDKTR 5877 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCI_ECOLI P77768 Uncharacterized protein yfcI (296 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCJ_ECOLI P77549 UPF0226 protein yfcJ (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCL_ECOLI P64540 Uncharacterized protein yfcL (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCM_ECOLI P76938 Uncharacterized protein yfcM (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 149 GIPERPARFI 158 GIP +RFI Sbjct: 1805 GIPAASSRFI 1776 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCN_ECOLI P0A8B2 UPF0115 protein yfcN (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +1 Query: 159 PKEYGGDA 166 P+E+GGD+ Sbjct: 6919 PEEWGGDS 6942 Score = 17.3 bits (33), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +1 Query: 42 VPVKRLIQEQADA 54 V RLIQ+ ADA Sbjct: 5425 TSVDRLIQQFADA 5463 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 8/17 (47%) Frame = -2 Query: 146 LAQHPHVMAFHQAPKEY 162 +H H+ HQ E+ Sbjct: 6516 FTRHSHIAITHQCFFEF 6466 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCO_ECOLI P76498 Uncharacterized protein yfcO (Precursor) (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -3 Query: 258 QPIDSTCRFQYIL 270 Q T R+QY+L Sbjct: 4712 QDYHPTKRYQYVL 4674 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCP_ECOLI P76499 Uncharacterized fimbrial-like protein yfcP (Precursor) (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +1 Query: 161 RDVTIGE 167 RDV IGE Sbjct: 6274 RDVIIGE 6294 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCQ_ECOLI P76500 Uncharacterized fimbrial-like protein yfcQ (Precursor) (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -1 Query: 5 FLTLLCVSSAIAH 17 F+TL C +S H Sbjct: 586 FITLFCRTSG*QH 548 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCR_ECOLI P76501 Uncharacterized protein yfcR (Precursor) (170 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.92, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = +2 Query: 16 LLVCSVCSLSAMAGSKPVDL 35 L C VC+L +A DL Sbjct: 5213 LAACGVCTLEDLAEQGVSDL 5272 Score = 16.5 bits (31), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = +1 Query: 67 TNYRQDAK 74 TNY DAK Sbjct: 847 TNYHSDAK 870 Score = 15.8 bits (29), Expect = 6.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 48 SIKGSQV 54 ++KGSQV Sbjct: 6328 AVKGSQV 6348 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCS_ECOLI P77599 Uncharacterized fimbrial chaperone yfcS (Precursor) (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.13, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -2 Query: 221 YVNDFGARMPLFFQ 234 YVN +G PLF+Q Sbjct: 6957 YVNKWGISSPLFWQ 6916 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -2 Query: 229 MPLFFQCNGNSCQ 241 +P+F G CQ Sbjct: 1284 IPIFANAGGRRCQ 1246 Score = 16.2 bits (30), Expect = 6.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -1 Query: 113 FYFNVREIP 121 FYF +IP Sbjct: 2164 FYFQTSQIP 2138 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCU_ECOLI P77196 Putative outer membrane usher protein yfcU (Precursor) (881 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +3 Query: 399 IANGWSLYGGALGDENYQ 416 I+NGWS Y + N Q Sbjct: 1701 ISNGWSTYSSLRSERNDQ 1754 Score = 19.6 bits (39), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 14/25 (56%) Frame = -3 Query: 610 FSRVDDATHYQLNIGTSDKHTSVDG 634 F+ + H+ +I ++D H S+D Sbjct: 3791 FADIA*CEHFIFSIYSNDDHFSIDS 3717 Score = 18.5 bits (36), Expect = 6.5, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -1 Query: 381 WGHHVEGGFF 390 WGHH++ + Sbjct: 2497 WGHHIKNALY 2468 Score = 18.1 bits (35), Expect = 7.5, Method: Compositional matrix adjust. Identities = 15/58 (25%), Positives = 24/58 (41%) Frame = +1 Query: 731 LNKLPENAEATQSVVQATLTEGAIGYRKFAVISGQKAMAVLRLQDGSHPPFGAEVKND 788 + +L + EA ++ E I R S K + + Q +HP F +KND Sbjct: 1813 MERLLSDNEALVKRLEMIPIECVIRNRTAG--SLVKRLGITENQVLNHPLFELFLKND 1980 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCV_ECOLI P77288 Uncharacterized fimbrial-like protein yfcV (Precursor) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.23, Method: Compositional matrix adjust. Identities = 12/51 (23%), Positives = 19/51 (37%) Frame = -2 Query: 128 SLGTSYKSGMGIDQKIVKDTATNKGKAKQTLNFKAWLVGAADAPDLGNFEA 178 SL + Y + GI + + +TL W + D D G+F Sbjct: 6972 SLFS*YVNKWGISSPLFWQDTVLR*FCSKTLWISVWFIYFVDNNDNGDFRC 6820 Score = 19.6 bits (39), Expect = 0.44, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 14/28 (50%) Frame = +1 Query: 100 SANSGNYYTIFNTDTGAAFNNVSLAIGD 127 S+ SGN+ T F VSL +G+ Sbjct: 2650 SSGSGNFMTRMTAILATLFFIVSLVLGN 2733 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFCZ_ECOLI P0AD33 UPF0381 protein yfcZ (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDC_ECOLI P37327 Inner membrane protein yfdC (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDE_ECOLI P76518 Uncharacterized protein yfdE (381 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDF_ECOLI P76505 Uncharacterized protein yfdF (352 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 70 NNSSVTYIDID 80 N SSVTYI + Sbjct: 2540 NTSSVTYIVVP 2508 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +2 Query: 252 HQVVNELNGERL 263 V NEL GER+ Sbjct: 4649 QAVSNELGGERI 4684 Score = 17.7 bits (34), Expect = 3.9, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 15/24 (62%) Frame = +1 Query: 98 ELPANYKDKELVRTIINDNIVEKT 121 E+P+ +D +R I+D+ EKT Sbjct: 3883 EIPST*EDF*SIRNCISDSDQEKT 3954 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDI_ECOLI P76507 Uncharacterized protein yfdI (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.57 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.57, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 10/15 (66%) Frame = +1 Query: 115 IKTERYVTLFTFFIL 129 I T YVTL FF+L Sbjct: 2506 IGTTMYVTLLVFFLL 2550 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 12/18 (66%) Frame = -1 Query: 283 VGTECFESHKDETFSNAL 300 +GT CF ++ + SNA+ Sbjct: 4453 LGTSCFRTYLIQNTSNAV 4400 Score = 16.9 bits (32), Expect = 9.0, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -1 Query: 141 MFASFYQEQIVIIF 154 +FAS Y VIIF Sbjct: 1615 IFASQYGSNSVIIF 1574 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDK_ECOLI P77656 Uncharacterized protein yfdK (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDL_ECOLI P76508 Putative uncharacterized protein yfdL (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.8, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 9/16 (56%) Frame = -3 Query: 100 GPIDVPLTSQDTVTYF 115 PI++ + +VTY Sbjct: 2564 SPIEISKKNTSSVTYI 2517 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDM_ECOLI P76509 Putative uncharacterized protein yfdM (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 8/19 (42%) Frame = -1 Query: 26 QWRTPDNIFWGINTLFGPF 44 QW +WG + PF Sbjct: 88 QWLLLTR*YWGFELISPPF 32 Score = 16.2 bits (30), Expect = 2.2, Method: Composition-based stats. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -3 Query: 2 SNKYCQALVELRNKPA 17 SNK +L R KPA Sbjct: 2156 SNKPNSSLKSTRIKPA 2109 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDN_ECOLI P76510 Uncharacterized protein yfdN (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 153 EEWYLSGN 160 ++W LSGN Sbjct: 794 QQWTLSGN 771 Score = 16.9 bits (32), Expect = 2.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 17 PGCTSGDI 24 PGC GD+ Sbjct: 6127 PGCDYGDL 6104 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDO_ECOLI P0AD35 Putative uncharacterized protein yfdO (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.3, Method: Composition-based stats. Identities = 9/26 (34%), Positives = 15/26 (57%) Frame = -2 Query: 70 NVLSPSKLREKWDELSLRLSPSVSTY 95 N +S SKL + + LSP +S++ Sbjct: 5208 NAISRSKLAKFNKSSAGLLSPKLSSF 5131 Score = 15.0 bits (27), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +3 Query: 95 YTEKREDPYF 104 YT++R YF Sbjct: 177 YTKRRARDYF 206 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDP_ECOLI P76512 Uncharacterized protein yfdP (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.76, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +1 Query: 73 RGKISEEDTTETPMYV 88 RGK TTE P Y+ Sbjct: 1630 RGKAKTVYTTEDPNYL 1677 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDQ_ECOLI P76513 Uncharacterized protein yfdQ (274 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 3/21 (14%) Frame = +1 Query: 37 PENFRIHD---LEKFNLNRFR 54 P+ R+ D LEK + +RFR Sbjct: 2188 PDGCRLWDKKTLEKMDKDRFR 2250 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = -2 Query: 138 WIEDWADYLVGFDANGD 154 WI W Y V + NGD Sbjct: 6879 WISVWFIYFVDNNDNGD 6829 Score = 16.5 bits (31), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 140 EDWADYL 146 ED+ DYL Sbjct: 3627 EDYTDYL 3647 Score = 16.2 bits (30), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +1 Query: 226 IITGDRPVL 234 ITGD P + Sbjct: 643 CITGDNPAI 669 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDR_ECOLI P76514 Uncharacterized protein yfdR (178 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +2 Query: 50 HAVLCSQLVPQEFAFEAL 67 AV + +P+E FEAL Sbjct: 3866 EAVSNEKSLPREKIFEAL 3919 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +3 Query: 43 HFYSVAQHAVLCSQ 56 HF + Q A CSQ Sbjct: 6231 HFTTEFQ*ASCCSQ 6272 Score = 15.4 bits (28), Expect = 9.5, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = +3 Query: 3 FIKTFSGKH 11 F KTF G H Sbjct: 3210 FEKTFIGSH 3236 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDS_ECOLI P76515 Uncharacterized protein yfdS (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDT_ECOLI P76516 Uncharacterized protein yfdT (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.9, Method: Composition-based stats. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = -1 Query: 83 IWQQRAGIHF 92 +W Q +HF Sbjct: 6016 LWVQAIYLHF 5987 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDV_ECOLI P0AA49 Uncharacterized transporter yfdV (314 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 19/34 (55%) Frame = -2 Query: 281 FNVYTRTGTASLAVSVLGFVVTAPLWIYVSRLVS 314 FN+ + AS + ++G VTA L SRLV+ Sbjct: 1389 FNLGSCAPNASQSRLLIGL*VTAMLPCCRSRLVT 1288 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = -3 Query: 181 LATILVLVGVKIPAAWDPT 199 +A I V+ +K+P DP Sbjct: 2699 VANIAVIRVIKLPEPLDPN 2643 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 16/50 (32%), Positives = 21/50 (42%) Frame = +3 Query: 163 NLSALISAAKEPVVWAPVLATILVLVGVKIPAAWDPTFNLIAKANSGVAV 212 +LS L E ++ APV A LVGV+ T + GV V Sbjct: 3360 SLSTLEQKLTE-IISAPVKALGHKLVGVEFIPGRQSTLRIYIDNCDGVTV 3506 Score = 16.2 bits (30), Expect = 9.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 106 SPTIGFL 112 SPT+GF+ Sbjct: 131 SPTLGFI 111 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDX_ECOLI P76520 Protein yfdX (Precursor) (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +3 Query: 83 SALLSDDSTEWAKFAKPG 100 S+ ++D T W +PG Sbjct: 6342 SSH*NNDETRWYGNNQPG 6395 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDY_ECOLI P76521 Uncharacterized protein yfdY (80 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFDZ_ECOLI P77434 Uncharacterized aminotransferase yfdZ (2.6.1.-) (412 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = +3 Query: 9 RFTRIDRLP 17 R RIDRLP Sbjct: 6018 RTNRIDRLP 6044 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = -2 Query: 317 AGWMVEMPKASMYVWAKI 334 A W+V K + +W+ I Sbjct: 4200 AVWVVMRSKTTDLIWSSI 4147 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEA_ECOLI P23842 Uncharacterized protein yfeA (729 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.90, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 11/23 (47%) Frame = -3 Query: 125 LFWLGLVTPIGIKCSMYLVGSFF 147 LF G P GIK + SFF Sbjct: 3380 LFQRGQTHPQGIKKKGLIAQSFF 3312 Score = 20.4 bits (41), Expect = 1.3, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 15/29 (51%) Frame = +1 Query: 326 ALTDPLTLLPNFRALEQAPEQEAGKSFCC 354 A++ T P F+ L++A E S CC Sbjct: 3778 AISAKQTGHPTFKNLDEAT*DEQRDSGCC 3864 Score = 20.0 bits (40), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 15/29 (51%) Frame = -2 Query: 395 QLPGSELLLVLSGPETEGRLQHMVNILNS 423 + G E L+ GP GR+ + + ++ S Sbjct: 4485 SISGRERLINNWGPRASGRISYKIPLMRS 4399 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEC_ECOLI P0AD37 Uncharacterized protein yfeC (114 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFED_ECOLI P27238 Uncharacterized protein yfeD (123 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.4, Method: Compositional matrix adjust. Identities = 5/21 (23%), Positives = 12/21 (57%) Frame = +1 Query: 36 GGRARLILVDTQVCEFIQNTP 56 GG+++ + ++ + NTP Sbjct: 5608 GGKSKSVQIEIRRKRTYINTP 5670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEH_ECOLI P39836 Uncharacterized protein yfeH (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.037 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.037, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 6/33 (18%) Frame = -3 Query: 80 PILGVLFAWWKPVNVDPMLYS------GFLYLC 106 P+ +LFA V V PM+ S G L LC Sbjct: 6338 PLTAILFASSATVTVSPMITSRLTTATGLLKLC 6240 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/40 (25%), Positives = 21/40 (52%), Gaps = 3/40 (7%) Frame = -3 Query: 286 TSVIGMMVLPLMIF---HQIQLMVCAVLARRYKRQTEQLQ 322 TS + +V+P++ H+ ++CA ++ K +Q Q Sbjct: 2537 TSSVTYIVVPILPMGSPHKKCSLLCASISSIAKEDCKQPQ 2418 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 1/26 (3%) Frame = +3 Query: 184 WIGDWVSRN-KKWIAKTDQTSILLVV 208 W WV N KKW+ + + +I +V+ Sbjct: 1017 W*NHWVYNNKKKWLLRISRYNITIVL 1094 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +2 Query: 304 LMVCAVLARRYKRQT 318 L C+ +RYKRQ Sbjct: 554 LAACST-EQRYKRQV 595 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEK_ECOLI Q47702 Uncharacterized protein yfeK (Precursor) (124 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEN_ECOLI P45564 Uncharacterized protein yfeN (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.53, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = +1 Query: 17 PVVSHAEFKG 26 PVVS+ EF+G Sbjct: 3268 PVVSNPEFRG 3297 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEO_ECOLI P67729 Putative ion-transport protein yfeO (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +2 Query: 40 LLWQRLP 46 ++WQRLP Sbjct: 1241 IVWQRLP 1261 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFER_ECOLI P0ACR7 Uncharacterized HTH-type transcriptional regulator yfeR (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.8, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 3/33 (9%) Frame = +1 Query: 262 PVVERQLMLVRR---KNRSLSTAAEALWDVVRD 291 P+VE++ + ++ K R + AAE V R+ Sbjct: 5824 PIVEKKKLTTQQQSDKTRREAEAAELKRSVERE 5922 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFES_ECOLI P78271 Uncharacterized protein yfeS (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFET_ECOLI P77245 Uncharacterized HTH-type transcriptional regulator yfeT (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +2 Query: 147 ALVGRDLSFKLMKIG 161 A + RD++FKL G Sbjct: 5183 ASLDRDMAFKLAACG 5227 Score = 18.5 bits (36), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 14/21 (66%) Frame = +1 Query: 3 YLTKISNAGSEFTENEQKIAD 23 Y+TKISN +N++ +AD Sbjct: 499 YITKISND----KDNKRFVAD 549 Score = 16.9 bits (32), Expect = 4.8, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = -2 Query: 70 LIGEYSASREKTNATALHL 88 LIG Y + T A +HL Sbjct: 2283 LIGFYHTA*IATKAIFIHL 2227 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEW_ECOLI P77619 UPF0214 protein yfeW (Precursor) (434 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -2 Query: 224 DRYVEESIYRPLGLT 238 RYV Y P G+T Sbjct: 2532 QRYVHSCTYSPYGVT 2488 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -3 Query: 122 LHPDDR 127 LHPDDR Sbjct: 905 LHPDDR 888 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEX_ECOLI P76536 Uncharacterized protein yfeX (1.-.-.-) (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 85 GLAPTTQFD 93 GLAP +FD Sbjct: 3464 GLAPWNKFD 3438 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEY_ECOLI P76537 Uncharacterized protein yfeY (Precursor) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.41, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 2/33 (6%) Frame = +1 Query: 73 GMKTANGNVVRFFEVMK--GDNVAMVINGDQGT 103 G+K A GN+ R + GDN ++++GD T Sbjct: 70 GLKEATGNLERLSMIKPSVGDNF-ILLSGDDAT 165 Score = 15.8 bits (29), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 139 KADGDDNRAV 148 KAD ++ RAV Sbjct: 6175 KADREEARAV 6204 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFEZ_ECOLI P76538 Inner membrane protein yfeZ (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.0, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 9/19 (47%) Frame = +1 Query: 68 GIPAVLAFLLSGRRATFPR 86 GIP + LLS A R Sbjct: 1798 GIPTQMERLLSDNEALVKR 1854 Score = 17.3 bits (33), Expect = 1.7, Method: Composition-based stats. Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 7/49 (14%) Frame = -1 Query: 46 QGTALLNLFYPDHDNFWLGLIP-------GIPAVLAFLLSGRRATFPRT 87 +G + N FY + F +P G L LLS ++FP T Sbjct: 3892 KGFLIRNGFYNSQNLFVHPKLPRLNF*KWGARFALRILLSANTSSFPST 3746 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFB_ECOLI P24178 Protein yffB (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFL_ECOLI P76543 Uncharacterized protein yffL (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFM_ECOLI P76544 Uncharacterized protein yffM (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.099 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.099, Method: Composition-based stats. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 8 CPSYCIAQKRVA 19 CP +CI K VA Sbjct: 194 CPPFCIKSKPVA 159 Score = 19.2 bits (38), Expect = 0.20, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = +3 Query: 3 VIRHECPSYCIA 14 V++HE P+Y +A Sbjct: 4431 VLKHEVPNYLLA 4466 Score = 16.5 bits (31), Expect = 1.5, Method: Composition-based stats. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = +2 Query: 57 FVKRLKLIKADIHAQLKA 74 VKR L+ I QLKA Sbjct: 6287 LVKRSPLLN*RIKWQLKA 6340 Score = 16.2 bits (30), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 9/26 (34%) Frame = -3 Query: 51 SEEEKLFVKRLKLIKADIHAQLKACD 76 S LFV + A L AC Sbjct: 5834 STIGLLFVSAIFFALASFALSLFACS 5757 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFN_ECOLI P76545 Uncharacterized protein yffN (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.051 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.051, Method: Composition-based stats. Identities = 15/41 (36%), Positives = 21/41 (51%) Frame = -3 Query: 82 VAIAALLRVMREPDFQCLEMVHEIIRIARDLEAPVDAPLDC 122 VA A++RV++ P+ V E EAP+ APL C Sbjct: 2699 VANIAVIRVIKLPEPLDPNRVEEA---PAPNEAPISAPLPC 2586 Score = 17.3 bits (33), Expect = 1.6, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = -2 Query: 100 EMVHEIIRIARDLEA 114 E+ H+IIRI +++ Sbjct: 1689 ELQHQIIRIFSSVDS 1645 Score = 14.6 bits (26), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +3 Query: 98 CLEMVHEIIRIARDL 112 CLE I IAR + Sbjct: 447 CLEKCGFTILIARKI 491 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFO_ECOLI P76546 Uncharacterized protein yffO (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.5, Method: Composition-based stats. Identities = 6/19 (31%), Positives = 8/19 (42%) Frame = -3 Query: 54 PGMPSHRQMMRWQLEHMDF 72 PG+ + W L M F Sbjct: 3977 PGLQFLVHVFSWSLSLMQF 3921 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFP_ECOLI P76547 Uncharacterized protein yffP (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 14/57 (24%), Positives = 24/57 (42%) Frame = +1 Query: 12 KRAADPLHDLRSKPFSEWGEDEIRRFNLIDALLEFVYTDTSSPFGIGMTFDYTECWE 68 K+ + ++D+ SK F + G L+D LEF + G + D W+ Sbjct: 2059 KKLSYQVNDVLSKLFDDAG------LILVDFKLEFGLFENKITLGDEFSPDGCRLWD 2211 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 164 GKLFQRDD 171 GK+FQR D Sbjct: 5251 GKIFQRTD 5228 Score = 16.9 bits (32), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 12/22 (54%), Gaps = 4/22 (18%) Frame = +3 Query: 86 PEYAK----HWNMKGVMNDKTR 103 P+Y + HW + +DKT+ Sbjct: 57 PQYHRVKRSHWKFRAA*HDKTQ 122 Score = 16.9 bits (32), Expect = 3.5, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 1/53 (1%) Frame = +3 Query: 24 KPFSEWGEDEIRRFNLIDALLEFVYTDTSSPFGIGMTFDYTEC-WEIGVRDDC 75 + F W R+N + +TD FD+T C + I R C Sbjct: 2472 RAFFMW*PHRENRYNYVRNAASIFFTD----------FDWTYCAYRIATR*RC 2600 Score = 16.9 bits (32), Expect = 3.7, Method: Composition-based stats. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +3 Query: 182 KLVGDDYVP 190 KLVG +++P Sbjct: 3426 KLVGVEFIP 3452 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 80 RVKPVHP 86 RVK +HP Sbjct: 6529 RVKQIHP 6509 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFQ_ECOLI P76548 Uncharacterized protein yffQ (125 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.7, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 15 VCFADVG 21 VCFAD+ Sbjct: 3797 VCFADIA 3777 Score = 15.8 bits (29), Expect = 4.6, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +2 Query: 89 LKKVLKENSDEKINLLN 105 LKK +K K+N LN Sbjct: 5960 LKKRVKWQQKMKVNGLN 6010 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFR_ECOLI P76549 Uncharacterized protein yffR (Precursor) (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.1, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 73 DRLPCLF 79 DRLPC + Sbjct: 6033 DRLPCHY 6053 Score = 16.2 bits (30), Expect = 2.9, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 5/8 (62%) Frame = +3 Query: 67 WKHVKEDR 74 W H +DR Sbjct: 6777 WGHATDDR 6800 Score = 15.4 bits (28), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 8/16 (50%) Frame = -2 Query: 61 MGRDYAWKHVKEDRLP 76 +G Y W +R+P Sbjct: 3288 LGV*YNWTLFAAERIP 3241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFFS_ECOLI P76550 Uncharacterized protein yffS (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 10/12 (83%) Frame = +2 Query: 25 RGAKCEEIANEL 36 RGA+ + ++NEL Sbjct: 4634 RGARVQAVSNEL 4669 Score = 15.8 bits (29), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +1 Query: 222 QAKGRGLISVEQEI 235 Q G+G+ISV + Sbjct: 181 QKGGQGIISVTANV 222 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGC_ECOLI P66948 TPR repeat-containing protein yfgC (Precursor) (487 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.99 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.99, Method: Compositional matrix adjust. Identities = 24/95 (25%), Positives = 36/95 (37%), Gaps = 4/95 (4%) Frame = +1 Query: 63 SAPLINDPLLTQYINSLGMRLVSHANSVKTPFHFFLINNDEINAFAFFGGNVVLHSALFR 122 S P++ LT S R + A +K + E +A V A Sbjct: 5818 SKPIVEKKKLTTQQQSDKTRREAEAAELKRSVEREVRRKIEEDA------KRVAEEARKM 5979 Query: 123 YSDNESQLASVMAHEIS----HVTQRHLARAMEDQ 153 ++NE + +A +I HVT ARA ED+ Sbjct: 5980 AAENEGKWPEPIAEQIELTDYHVTTSQHARAAEDE 6084 Score = 17.3 bits (33), Expect = 7.1, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 7/12 (58%) Frame = +2 Query: 54 DYYVRQLRGSAP 65 DY QLRG P Sbjct: 3563 DYLSLQLRGLIP 3598 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGD_ECOLI P76569 Uncharacterized protein yfgD (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.3, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -3 Query: 38 TPADAATLRDLLKI 51 TP+ AAT + + + Sbjct: 6782 TPSSAATTKTTISV 6741 Score = 16.5 bits (31), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -1 Query: 34 LYLETPADAATLRDLL 49 +YL+ P D A LL Sbjct: 271 IYLQLPVDKAPSFHLL 224 Score = 15.0 bits (27), Expect = 7.4, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = +2 Query: 4 QVKIYHNPRCS 14 QVK N RC+ Sbjct: 5540 QVKCQINLRCN 5572 Score = 14.6 bits (26), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 60 LMRQKEDLYKE 70 +MRQ LYK+ Sbjct: 155 MMRQVLILYKK 187 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGF_ECOLI P77172 Inner membrane protein yfgF (747 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.029 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.8 bits (55), Expect = 0.029, Method: Compositional matrix adjust. Identities = 24/101 (23%), Positives = 50/101 (49%) Frame = +1 Query: 457 LLLGELNTVAELSIVTNAPENMQRRGAMYLQRELKDKVAMMNRLQQALEHNHFFLMAQPI 516 +++GE TVAEL+ M +G+ ++ + K+ M + Q ++ L+A+ Sbjct: 6280 VIIGETVTVAELA------NKMAVKGSQVIKTMM--KLGGMATINQVIDQETAQLVAE-- 6429 Query: 517 TGMRGDVYHEILLRMKGENDELISPDSFLPVAHEFGLSSSI 557 ++ H+++LR + E +E + D + VA E L + + Sbjct: 6430 -----EMGHKVILRRENELEEALMSDRDMGVAGESALRAPV 6537 Score = 20.0 bits (40), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 10/12 (83%) Frame = +1 Query: 687 ASICHLARMKKM 698 AS HLA+MKK+ Sbjct: 2032 ASEAHLAQMKKL 2067 Score = 19.6 bits (39), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +3 Query: 333 DPVVHLPNVRALNRA 347 D V L N+R NRA Sbjct: 3759 DEVFALSNIRKANRA 3803 Score = 18.9 bits (37), Expect = 4.3, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 2/34 (5%) Frame = +1 Query: 336 VHLPNVRALNRA--LRDAPWSALCYLRIPGMEML 367 V +P+ ++R L D +CY+ GME L Sbjct: 2989 VQIPSSVPIHRDSLLLDDDQRTICYVFGRGMEQL 3090 Score = 17.7 bits (34), Expect = 9.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 11/13 (84%) Frame = -1 Query: 672 FIRNIVSNSLDYQ 684 ++RNIVS+ L +Q Sbjct: 700 YLRNIVSSML*WQ 662 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGG_ECOLI P64545 Uncharacterized protein yfgG (63 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.034 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.034, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 19/32 (59%) Frame = +1 Query: 17 MTRIVLLISFIFFFGRFIYSSVGAWQHHQSKK 48 MTR+ +++ +FF + ++ + QH QS + Sbjct: 2671 MTRMTAILATLFFIVSLVLGNMSSKQHRQSSE 2766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGH_ECOLI P65290 Uncharacterized lipoprotein yfgH (Precursor) (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +1 Query: 20 AGCQSNADDHAADVYQTDQL 39 +GC+SNA Y+ D++ Sbjct: 895 SGCKSNAH------YRLDKM 936 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGI_ECOLI P76573 Uncharacterized protein yfgI (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -3 Query: 4 VFLCAILASLSYP 16 F+CA ASL+ P Sbjct: 2063 FFICARCASLAQP 2025 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 13/31 (41%), Positives = 17/31 (54%) Frame = +2 Query: 92 SADKKRDQSYEDELRSLEIQKQKLALAKEEA 122 S DKKR Q D +++ LAL KEE+ Sbjct: 5060 SFDKKRLQELRDRAQNV---LTTLALKKEES 5143 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGJ_ECOLI P76575 Uncharacterized protein yfgJ (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.7, Method: Composition-based stats. Identities = 6/20 (30%), Positives = 8/20 (40%) Frame = -2 Query: 35 PDCHQPLQVLKACGAVDYFC 54 P C + + A A FC Sbjct: 4275 PSCSRNCSITTARSASRTFC 4216 Score = 15.0 bits (27), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 7/18 (38%) Frame = +2 Query: 47 CGAVDYFCQHGHGLISKK 64 C DY GLI + Sbjct: 3551 C*RADYLSLQLRGLIPRS 3604 Score = 13.9 bits (24), Expect = 6.6, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = -2 Query: 48 GAVDYFCQHGHGLISKK 64 GA F +H H I+ + Sbjct: 6531 GA*SRFTRHSHIAITHQ 6481 Score = 13.9 bits (24), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +1 Query: 42 QVLKAC 47 QVL AC Sbjct: 3598 QVLSAC 3615 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGL_ECOLI P77774 Lipoprotein yfgL (Precursor) (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.26, Method: Compositional matrix adjust. Identities = 12/47 (25%), Positives = 20/47 (42%) Frame = -2 Query: 182 KWTVNLDMPSLSLRGESAPTTAFGAAVVGGDNGRVSAVLMEQGQMIW 228 ++ +NL LR + A G V DNG V ++ ++ W Sbjct: 2091 EYIINLITQLFHLRQMRFTSPAKGFTVSLTDNGIVQLIIFQKQLK*W 1951 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = +3 Query: 362 VDSSGFQT 369 DSSGFQT Sbjct: 2115 FDSSGFQT 2138 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFGM_ECOLI P76576 UPF0070 protein yfgM (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 9/16 (56%) Frame = -3 Query: 177 ARSAWEAGVKSDVTPA 192 A + W A + +TP+ Sbjct: 6821 ALACWMASIVCGMTPS 6774 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHA_ECOLI P0AFU4 Uncharacterized protein yfhA (ORF-2) (444 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHB_ECOLI P0AD42 Uncharacterized protein yfhB (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +2 Query: 80 QTLQADFVRWFR 91 QTL D+++W R Sbjct: 908 QTLTTDWIKWNR 943 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 11/30 (36%), Positives = 18/30 (60%) Frame = -1 Query: 97 FPLVQERLTTYLLSSDADIWLITGSPQPLV 126 + L+Q+ ++ LLS A + L S QPL+ Sbjct: 5974 YALLQQPVSRLLLSYGALLVLQNVSVQPLL 5885 Score = 16.2 bits (30), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 7/15 (46%) Frame = -3 Query: 67 LWGCTFGHSEARLQT 81 +W GH A L+ Sbjct: 5120 MWSVHSGHDHAALEA 5076 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHG_ECOLI P0AD44 Uncharacterized protein yfhG (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHH_ECOLI P37767 Uncharacterized HTH-type transcriptional regulator yfhH (282 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.37, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 13/21 (61%) Frame = +1 Query: 39 QLANEAGVSQSSVVKFAQKLG 59 +LAN+ V S V+K KLG Sbjct: 6310 ELANKMAVKGSQVIKTMMKLG 6372 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = -1 Query: 12 QGLAQSDKKLADYLLLQP 29 QGLA S + LLL P Sbjct: 424 QGLAMSSVSVRFLLLLIP 371 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 16/33 (48%) Frame = -3 Query: 12 QGLAQSDKKLADYLLLQPDTARHLSSQQLANEA 44 GL + K+ +LLL TAR S +E+ Sbjct: 6260 TGLLKLCCKVLGFLLLLRPTARASSRSAFDSES 6162 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 9/35 (25%), Positives = 13/35 (37%) Frame = +1 Query: 205 VGGKVLAITGFTPNALQQRASHCLYTIAEEQATNS 239 + G AIT + + C + ATNS Sbjct: 646 ITGDNPAITAWNLRYCASITARCRWQTVRHSATNS 750 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHK_ECOLI P52101 Putative sensor-like histidine kinase yfhK (2.7.13.3) (Precursor) (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +3 Query: 445 IRRMQGELYLVDESGQDVCF 464 I+ + GE+ +V G+D F Sbjct: 3711 IKAVDGEMIIVTVDGKDEVF 3770 Score = 18.1 bits (35), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 357 ACLAEPML 364 AC AEP+L Sbjct: 4115 ACFAEPLL 4092 Score = 18.1 bits (35), Expect = 3.6, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +1 Query: 40 LSDQAALVNRTTLI 53 LSD ALV R +I Sbjct: 1825 LSDNEALVKRLEMI 1866 Score = 17.7 bits (34), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +3 Query: 424 SHQRKGAVKGSGLGLSIAR 442 S R+G ++ G + IAR Sbjct: 429 SEARRGCLEKCGFTILIAR 485 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 13/26 (50%) Frame = -3 Query: 358 CLAEPMLLMSVLDNLYSNAVHYGAES 383 C A+ + ++YSN H+ +S Sbjct: 3794 CFADIA*CEHFIFSIYSNDDHFSIDS 3717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHL_ECOLI P52102 Uncharacterized ferredoxin-like protein yfhL (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.6, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 56 IPNTIVKDPA 65 IPN +PA Sbjct: 1925 IPNRFTSEPA 1896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHM_ECOLI P76578 Uncharacterized lipoprotein yfhM (Precursor) (1653 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFHR_ECOLI P77538 Uncharacterized protein yfhR (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.97 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.97, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 11/25 (44%) Frame = -3 Query: 131 TPSQAGLLDDTQSAINVVRHRSDVN 155 TPS A T S R R DVN Sbjct: 6782 TPSSAATTKTTISVA*APRARIDVN 6708 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIB_ECOLI P07021 Putative lipoprotein yfiB (Precursor) (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.32, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = -2 Query: 105 SLKRANVVADAWA 117 S RANVV+ WA Sbjct: 5136 SFFRANVVSTFWA 5098 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIC_ECOLI P31825 Uncharacterized protein yfiC (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = -1 Query: 20 VAHDRCAM 27 + H+RC M Sbjct: 25 INHNRCVM 2 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIE_ECOLI P33634 Uncharacterized HTH-type transcriptional regulator yfiE (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 2/26 (7%) Frame = -1 Query: 269 HHAGKAVSPAMHT--FIQCVEESFVA 292 HH K +S +HT C + F+ Sbjct: 1021 HH*SKLISLLLHTNLITACKGDIFIG 944 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIF_ECOLI P0AGJ5 Uncharacterized tRNA/rRNA methyltransferase yfiF (2.1.1.-) (345 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.61, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 19/31 (61%) Frame = +3 Query: 174 VCFLIKKRNGTTVQQWVSQAGAQDCVLALEN 204 +C+ +KRN T+ + +++ A+ +A EN Sbjct: 5487 LCYSARKRNITSTFKT*TRSSAK*TYVATEN 5579 Score = 16.9 bits (32), Expect = 6.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +3 Query: 106 EETRVYGEN 114 +ETR YG N Sbjct: 6360 DETRWYGNN 6386 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIH_ECOLI P33644 UPF0124 protein yfiH (243 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.4, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 8/14 (57%) Frame = +3 Query: 64 PVWLEQVHGKDVLK 77 P WL V KDV K Sbjct: 2187 PRWLSLVG*KDVRK 2228 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIL_ECOLI P11289 Uncharacterized protein yfiL (URF2) (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.7, Method: Composition-based stats. Identities = 9/26 (34%), Positives = 14/26 (53%) Frame = -2 Query: 92 ASCNNVENASQLHEVWQKGADENAST 117 A N + NAS++ + + E AST Sbjct: 3939 AVANAISNASKIFSRGRDFSLETAST 3862 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIM_ECOLI P46126 Uncharacterized protein yfiM (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +1 Query: 51 MSRDRSAMFGLMFSVSL 67 M+R + + L F VSL Sbjct: 2671 MTRMTAILATLFFIVSL 2721 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIN_ECOLI P46139 Inner membrane protein yfiN (408 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.28, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 6/35 (17%) Frame = +2 Query: 93 EVRDKQQNILASWHYTRKD------PGDTFSNFIS 121 E+RD+ QN+L + +++ P D N S Sbjct: 5084 ELRDRAQNVLTTLALKKEESFGDNKPADDLLNLAS 5188 Score = 20.0 bits (40), Expect = 0.89, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = +3 Query: 297 WGHATGDR 304 WGHAT DR Sbjct: 6777 WGHATDDR 6800 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIO_ECOLI P0AC02 UPF0169 lipoprotein yfiO (Precursor) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = +1 Query: 138 QHARAAFSDFSKLVRG 153 QHARAA + V G Sbjct: 6058 QHARAAEDENDAKVEG 6105 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -3 Query: 121 DSALQGFF 128 SAL GFF Sbjct: 5759 SSALAGFF 5736 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIP_ECOLI Q47319 DTW domain-containing protein yfiP (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIQ_ECOLI P76594 Uncharacterized protein yfiQ (886 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 12/25 (48%) Frame = +2 Query: 52 KAVLGVLAWPDIASLPFTPDLAVLC 76 K+ G+L+ + L TP V C Sbjct: 3230 KSCRGILSAANRVQLYQTPSFGVFC 3304 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFIR_ECOLI P64548 Uncharacterized protein yfiR (Precursor) (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +1 Query: 38 GIVSYTRWPALSGPPKLC 55 GI+S T A G +LC Sbjct: 196 GIISVTANVAAGGMTELC 249 Score = 15.8 bits (29), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +2 Query: 33 RMMVSGIVSYTRWPAL 48 + VSG +Y PAL Sbjct: 584 KRQVSGDEAYLNAPAL 631 Score = 15.4 bits (28), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +2 Query: 51 PPKLCI 56 PP+LC+ Sbjct: 2630 PPQLCL 2647 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJD_ECOLI P37908 UPF0053 inner membrane protein yfjD (428 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = +1 Query: 368 LPEDDARTVNGVILEALEEI 387 L +DD RT+ V +E++ Sbjct: 3031 LLDDDQRTICYVFGRGMEQL 3090 Score = 16.5 bits (31), Expect = 9.6, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 9/12 (75%) Frame = +2 Query: 223 WKSILRQLSHSP 234 W S++ + +H+P Sbjct: 3080 WSSLVARRAHNP 3115 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJF_ECOLI P52119 UPF0125 protein yfjF (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 5.8, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 11/29 (37%) Frame = +1 Query: 55 IYSRPAKLSDSVHDGDRVEIYRPLIADPK 83 + +PAK + E IAD K Sbjct: 5731 VEKKPAKAEEQAKSESAKEANAKKIADTK 5817 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJG_ECOLI P0AGL5 UPF0083 protein yfjG (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJH_ECOLI P52123 Uncharacterized protein yfjH (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 14/28 (50%) Frame = +2 Query: 86 GTRVRLYSCDVPWETRHHTVNGQLEIKE 113 G VRL S WE T+N E+KE Sbjct: 4835 GQNVRLVSQLSGWELNVMTIN---ELKE 4909 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +2 Query: 245 GWKNKVVAVNELIE 258 GW+ V+ +NEL E Sbjct: 4868 GWELNVMTINELKE 4909 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +2 Query: 229 IQLKLVELIND 239 IQL L L+ND Sbjct: 338 IQLPLSGLVND 370 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJI_ECOLI P52124 Uncharacterized protein yfjI (469 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 12/21 (57%) Frame = -2 Query: 375 IVAWYIEEYIRLFSKKEEFSL 395 IV + IR+FS + FSL Sbjct: 1698 IVTELQHQIIRIFSSVDSFSL 1636 Score = 16.9 bits (32), Expect = 9.0, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 19/35 (54%) Frame = +3 Query: 25 QHTQAPQGLIAASALGVISLACQNRIDVCRLNNLR 59 Q+ + QG+I A +I + + +V L+N+R Sbjct: 3684 QNRRKWQGIIKAVDGEMIIVTVDGKDEVFALSNIR 3788 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJJ_ECOLI P52125 Uncharacterized protein yfjJ (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.25 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.25, Method: Compositional matrix adjust. Identities = 13/40 (32%), Positives = 20/40 (50%) Frame = -1 Query: 15 RDRIKQVIDDSLNEHLNSMILRVDLHDPIDTENMDNPFFQ 54 R R+KQ+ +S++LRV H D + +PF Q Sbjct: 6535 RGRVKQIHPPLPYRDHSSVLLRVHFH---DAR*LYDPFLQ 6425 Score = 20.0 bits (40), Expect = 0.42, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 13/20 (65%) Frame = -1 Query: 25 SLNEHLNSMILRVDLHDPID 44 +LN HLN ++ + L P+D Sbjct: 307 ALNAHLNGLLR*IYLQLPVD 248 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = -3 Query: 50 NPFFQPRVDSGA 61 NP PRV+ A Sbjct: 773 NPLIVPRVELVA 738 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 13/33 (39%), Gaps = 7/33 (21%) Frame = -3 Query: 97 AWVREYTKNRKRHYHLI-------LCFNQDAYY 122 WV+ Y RH L+ LCF YY Sbjct: 1217 VWVKRY-----RHVPLVPLGDRFCLCFEHYCYY 1134 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 89 SRHSTLRY 96 RH+TLR+ Sbjct: 2943 GRHATLRW 2966 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJK_ECOLI P52126 Uncharacterized protein yfjK (729 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJL_ECOLI P52127 Uncharacterized protein yfjL (538 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.6, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +1 Query: 411 EIRDQLYEDISDCIDTARK 429 E+R ++ ED + ARK Sbjct: 5920 EVRRKIEEDAKRVAEEARK 5976 Score = 18.1 bits (35), Expect = 4.6, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 13/19 (68%) Frame = -3 Query: 275 AKRKGQVLHQQYSLKKYRY 293 AKR +VL Q +K+YR+ Sbjct: 1250 AKRWRRVLVQ*VWVKRYRH 1194 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJM_ECOLI P52128 Uncharacterized protein yfjM (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = +3 Query: 43 PKQAIMMSYKEWG 55 PKQ + YK++ Sbjct: 4191 PKQRNKLLYKKYA 4229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJN_ECOLI P52129 Uncharacterized protein yfjN (357 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.32, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 15/25 (60%) Frame = -1 Query: 202 VQQEVARTYLQTVMADAYPHLHVTA 226 +Q E+ R LQ M YPHL++ A Sbjct: 2650 IQTELRRHPLQ--MKRPYPHLYLVA 2582 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -2 Query: 157 TTGKLQIQGRPLSC 170 TTG + RPLSC Sbjct: 3618 TTGAQDLGMRPLSC 3577 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJO_ECOLI P52130 Uncharacterized protein yfjO (123 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJP_ECOLI P52131 Uncharacterized protein yfjP (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 30 7e-04 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 29.6 bits (65), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 19/90 (21%), Positives = 41/90 (45%) Frame = +1 Query: 37 PVIGIMGKTGAGKSSLCNALFAGEVSPVSDVAACTRDPLRFRLQIGEHFMTIVDLPGVGE 96 PV+ IMG GK+SL + + + +V+ + T+ + ++ +T +D PG Sbjct: 6532 PVVTIMGHVDHGKTSLLDCIRSTKVA-AGEAGGITQHIGAYHVETENGMVTFLDTPG--- 6699 Query: 97 SGVRDTEYAALYREQLPRLDLILWLIKADD 126 + ++ D+++ ++ ADD Sbjct: 6700 ----HAAFTSMRARGAQATDIVVLVVAADD 6777 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = +2 Query: 114 RLDLILW 120 R+D++LW Sbjct: 4679 RIDIVLW 4699 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJQ_ECOLI P52132 UPF0380 protein yfjQ (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.68, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = -2 Query: 194 EDHQPVTESQILSPRRWQDES 214 E H PV ++SP D S Sbjct: 6684 EGHHPVFGFNVISPDMLCDPS 6622 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = +2 Query: 196 HQPVTESQILSPRRWQD 212 H PV I P+RW D Sbjct: 5 HAPVV---IYCPKRW*D 46 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +2 Query: 219 TTYQRIQENLIK 230 TTYQRI+ +K Sbjct: 2327 TTYQRIKRFKVK 2362 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJR_ECOLI P52133 Uncharacterized HTH-type transcriptional regulator yfjR (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJS_ECOLI O52982 Uncharacterized lipoprotein yfjS (Precursor) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.4, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +1 Query: 75 SPDGC 79 SPDGC Sbjct: 2185 SPDGC 2199 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJT_ECOLI P52135 Uncharacterized protein yfjT (Precursor) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 107 DNAWFSFIMD 116 DN+ FSF D Sbjct: 2074 DNSAFSFAPD 2045 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJU_ECOLI P52136 Putative arsenate reductase (1.20.4.1) (Arsenical pump modifier) (Fragment) (51 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJV_ECOLI P52137 Putative arsenical pump membrane protein (Fragment) (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJW_ECOLI P52138 Uncharacterized protein yfjW (567 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = -3 Query: 408 GFLLVLKP 415 GFLL+L+P Sbjct: 6227 GFLLLLRP 6204 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJX_ECOLI P52139 Uncharacterized protein yfjX (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.57 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.57, Method: Compositional matrix adjust. Identities = 10/39 (25%), Positives = 20/39 (51%), Gaps = 8/39 (20%) Frame = -2 Query: 15 SEFELSV---TQVPDEQHIR-----FWPQHFGTIPQWIT 45 S+F++S+ T++ +R FW + + I W+T Sbjct: 2895 SQFKISLCSDTKISTSLSLRNIAARFWRRAYFLIFSWLT 2779 Score = 16.9 bits (32), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = +1 Query: 47 EPRIFAWMDRFC 58 P I AW R+C Sbjct: 658 NPAITAWNLRYC 693 Score = 16.5 bits (31), Expect = 3.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 5/10 (50%) Frame = -2 Query: 57 FCDEYCGGIW 66 FC C +W Sbjct: 4221 FCTITCFAVW 4192 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJY_ECOLI P52140 Putative radC-like protein yfjY (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.83 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.83, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 12/27 (44%) Frame = -1 Query: 128 RLVQALQLVDIRVPDHLIVGGRQIYSF 154 RL L LVD P H G YS+ Sbjct: 2809 RLFSHL*LVDSDFPTHCF-DGVACYSY 2732 Score = 16.5 bits (31), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 13/22 (59%) Frame = +1 Query: 54 AGLEREEFMMLYLNQQNQLIAH 75 AGL++ E + ++ L+AH Sbjct: 5461 AGLKKSETSSVTQQEKEILLAH 5526 Score = 16.2 bits (30), Expect = 3.8, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = +2 Query: 13 LPLTAQRTVKRALTLLDRHLRE 34 +PL+ + TVK L+ R R+ Sbjct: 1991 IPLSVRLTVKPLAGLVKRIWRK 2056 Score = 16.2 bits (30), Expect = 4.2, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 14/33 (42%) Frame = +1 Query: 74 AHETLFAGSISSTEVHPREVVKRALYFNAAAVI 106 A TLF S S + + L+F + V+ Sbjct: 2629 ASSTLFGSSGSGNFMTRMTAILATLFFIVSLVL 2727 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YFJZ_ECOLI P52141 Uncharacterized protein yfjZ (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.6, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 22 QEGNQL 27 Q+GNQL Sbjct: 992 QQGNQL 1009 Score = 16.2 bits (30), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 7 GLQRDITPRLGARL 20 GLQR RLG+ L Sbjct: 971 GLQRGHLHRLGSIL 930 Score = 15.8 bits (29), Expect = 3.7, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 78 LYHNGFTC 85 LY+N F C Sbjct: 4219 LYNNLFRC 4196 Score = 14.2 bits (25), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/18 (27%), Positives = 6/18 (33%) Frame = +2 Query: 40 FSDAECPKLDVVFPHFIS 57 S C K PH + Sbjct: 6902 LSTVSCQKSGEEIPHLFT 6955 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAC_ECOLI P0AD53 Uncharacterized protein ygaC (114 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.98, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 12 LEKVGFTV 19 LEK GFT+ Sbjct: 450 LEKCGFTI 473 Score = 17.7 bits (34), Expect = 0.99, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -1 Query: 100 VALERYLNGLF 110 VAL +LNGL Sbjct: 310 VALNAHLNGLL 278 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAD_ECOLI P0A6G3 Protein ygaD (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -3 Query: 34 WVAKVITDIAGSSA 47 W+A ++ + SSA Sbjct: 6809 WMASIVCGMTPSSA 6768 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAE_ECOLI P37338 Uncharacterized HTH-type transcriptional regulator ygaE (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +3 Query: 139 VAGCGSH 145 V GCG H Sbjct: 4623 VLGCGEH 4643 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAF_ECOLI P37339 Uncharacterized protein ygaF (422 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.31 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.31, Method: Compositional matrix adjust. Identities = 29/113 (25%), Positives = 49/113 (43%), Gaps = 8/113 (7%) Frame = +1 Query: 140 PSSGIVSYRDVTAAMAKIFQSRGGEIIYNAEVSGLNEHKNGVVIRTRQGGEYEASTL-IS 198 P+ ++ +R+ T+AM G+ I + G+ +K I R EA+ + Sbjct: 1666 PNYLVLEFRNDTSAM-------DGQRIQAFDRKGMINNKFNHFIMNR----LEAAGIPTQ 1812 Query: 199 CSGLMADR--LVKMLGLEPGFIICPFRGE-----YFRLAPEHNQIVNHLIYPI 244 L++D LVK L + P I C R RL NQ++NH ++ + Sbjct: 1813 MERLLSDNEALVKRLEMIP--IECVIRNRTAGSLVKRLGITENQVLNHPLFEL 1965 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAH_ECOLI P43667 Uncharacterized protein ygaH (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAM_ECOLI P0ADQ7 Uncharacterized protein ygaM (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAP_ECOLI P55734 Inner membrane protein ygaP (174 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -3 Query: 103 VAVNKSQPL 111 V+ NKSQP+ Sbjct: 35 VSGNKSQPV 9 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAQ_ECOLI P76616 Putative uncharacterized protein ygaQ (750 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.20, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 12/21 (57%) Frame = -1 Query: 300 FGIDIIPDYTFNFMGIGGSGK 320 F IDI PD+ F FM G + Sbjct: 3994 FSIDINPDFNFLFMFFLGRCR 3932 Score = 23.1 bits (48), Expect = 0.23, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 1/34 (2%) Frame = +1 Query: 380 ASKDNISKDEWENL-HALKEKRLNGMPKTTPKSD 412 +SK + EWENL K+++++ PK P SD Sbjct: 2737 SSKQHRQSSEWENLSQPAKDEKISAPPK--PSSD 2832 Score = 19.2 bits (38), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +1 Query: 14 DNPTLLSWNI 23 DNP + +WN+ Sbjct: 655 DNPAITAWNL 684 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAU_ECOLI P0ADE6 Uncharacterized protein ygaU (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAV_ECOLI P77295 Probable HTH-type transcriptional regulator ygaV (99 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.2, Method: Composition-based stats. Identities = 16/60 (26%), Positives = 27/60 (45%) Frame = +1 Query: 39 TSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNVYC 98 TSA + ITG + + T+ +L R I ++ Q + +S N + I V+C Sbjct: 622 TSAKKAQCITGDNPAITAWNL---RYCASITARCRWQTVRHSATNSTLGTIKGFPDRVHC 792 Score = 14.6 bits (26), Expect = 7.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 21 MSHPKRLL 28 +SH KRLL Sbjct: 3887 ISH*KRLL 3864 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAW_ECOLI P64550 Uncharacterized protein ygaW (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAY_ECOLI P76628 Putative uncharacterized transporter ygaY (394 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -3 Query: 66 LVPLGDMF 73 LVPLGD F Sbjct: 1187 LVPLGDRF 1164 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGAZ_ECOLI P76630 Inner membrane protein ygaZ (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBA_ECOLI P25728 Uncharacterized protein ygbA (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.2, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +2 Query: 50 FGEEKPA 56 FG+ KPA Sbjct: 5144 FGDNKPA 5164 Score = 14.6 bits (26), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = -2 Query: 81 GPRMLWRHPIL 91 G LW PI+ Sbjct: 6804 GLDRLWHDPII 6772 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBE_ECOLI P46141 Inner membrane protein ygbE (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBF_ECOLI P45956 Uncharacterized protein ygbF (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.52, Method: Composition-based stats. Identities = 9/17 (52%), Positives = 9/17 (52%) Frame = -2 Query: 67 GFEFQTFGLNRRTPVDL 83 GFE TFGL R L Sbjct: 3135 GFEPATFGL*ARRATKL 3085 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBI_ECOLI P52598 Uncharacterized HTH-type transcriptional regulator ygbI (265 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/29 (24%), Positives = 14/29 (48%) Frame = -3 Query: 52 KLEQQGAVVLVSGGVQSPGRVAHEPSHQV 80 K+++ + + S RVA +P+H Sbjct: 1568 KIKEDHRFLFILHHFDSMQRVAPQPAHHF 1482 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBJ_ECOLI Q46888 Uncharacterized oxidoreductase ygbJ (1.1.-.-) (302 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBK_ECOLI Q46889 Uncharacterized protein ygbK (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBL_ECOLI Q46890 Putative aldolase class 2 protein ygbL (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBM_ECOLI Q46891 Protein ygbM (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBN_ECOLI Q46892 Inner membrane permease ygbN (454 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.47, Method: Compositional matrix adjust. Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 9/43 (20%) Frame = +1 Query: 235 PGVALVTSLIVIPIAIIMAGTVSATLMPP---------SHPLL 268 ALV L +IPI ++ + +L+ +HPL Sbjct: 1831 DNEALVKRLEMIPIECVIRNRTAGSLVKRLGITENQVLNHPLF 1959 Score = 16.9 bits (32), Expect = 7.6, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 17/32 (53%) Frame = +3 Query: 247 PIAIIMAGTVSATLMPPSHPLLGTLQLIGSPM 278 P+AI + AT++ + P+L + I + M Sbjct: 1392 PVAISCKWVILATVVACNSPILKGIH*INNKM 1487 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGBT_ECOLI Q46896 Uncharacterized protein ygbT (305 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.37, Method: Compositional matrix adjust. Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 1/50 (2%) Frame = -1 Query: 109 EDLRLKVV-RKMFELRFGEPAPARRSVEQLRGIEGSRVRATYALLAKQYG 157 D RL+ V + R+G PAP ++ R R T + A QYG Sbjct: 1741 SDRRLEYVDHPLLMYRYGTPAPNN*DLQ*CRQF*PFR-DTTRLIFASQYG 1595 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 15/30 (50%) Frame = -2 Query: 40 IRTHIPVGSVACIMLEPGTRVSHAAVRLAA 69 I TH P+GS+ ++ A R+AA Sbjct: 4632 IPTHAPIGSIRLSLVLTAILARDAGSRIAA 4543 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = +2 Query: 295 VSLGDAGHRSS 305 + +GD G+RSS Sbjct: 1406 LQVGDFGNRSS 1438 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCB_ECOLI P38036 Uncharacterized protein ygcB (888 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.4, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 15/33 (45%) Frame = -2 Query: 87 SAESWLKLNPATPSLNGPSTQMCRKFNHGAAGL 119 SA S P +LN S KFN +AGL Sbjct: 5253 SARSSSVQTPHAANLNAISRSKLAKFNKSSAGL 5155 Score = 18.1 bits (35), Expect = 8.1, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -2 Query: 219 SLLAGFCSLADWLGSW 234 ++L FCS W+ W Sbjct: 6912 TVLR*FCSKTLWISVW 6865 Score = 17.7 bits (34), Expect = 8.9, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 15/27 (55%) Frame = -3 Query: 198 LEALFLTPAGLSINDIPPDCSSLLAGF 224 + A+F A +++ CSS LAGF Sbjct: 5813 VSAIFFALASFALSLFA--CSSALAGF 5739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCE_ECOLI P55138 Uncharacterized sugar kinase ygcE (2.7.1.-) (492 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 270 GMWTVSWL 277 G W+V WL Sbjct: 4023 GKWSVKWL 4046 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCF_ECOLI P64554 Uncharacterized protein ygcF (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCG_ECOLI P55140 UPF0603 protein ygcG (Precursor) (290 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 7/42 (16%) Frame = +1 Query: 7 MFTFVCSFVAAQ-PTIVPQLQQQVTDL------TSSLNSQEK 41 M +AA+ T V +L QQ D TSS+ QEK Sbjct: 5383 MTDVTIKLLAAEISTSVDRLIQQFADAGLKKSETSSVTQQEK 5508 Score = 16.5 bits (31), Expect = 6.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +2 Query: 94 ILIVVAWSDRTVRIQ 108 ILI+ WS T+ Q Sbjct: 1664 ILIIWCWSSVTIHQQ 1708 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCH_ECOLI Q46897 Uncharacterized protein ygcH (199 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = -2 Query: 7 IIARAWSRDLYQLHQGLWHLFP 28 I AR W R + + L +FP Sbjct: 2832 IAARFWRRAYFLIFSWLTQIFP 2767 Score = 15.4 bits (28), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/27 (22%), Positives = 11/27 (40%) Frame = -2 Query: 99 NQKRLDSKGNIKRCRVPLIKEAEQIAW 125 + K + +I RC + + AW Sbjct: 4995 STKTVAHSSSISRCSINISIAVRVSAW 4915 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCI_ECOLI Q46898 Uncharacterized protein ygcI (Precursor) (224 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/39 (23%), Positives = 17/39 (43%) Frame = -1 Query: 186 SVTGHHLKFTARDEPMITLPRQFASREWYVIKGGMDVSQ 224 S+ GHH+K P+ + + I G+D ++ Sbjct: 2503 SLWGHHIKNALYYVPLFLASLKKIANNLNAI*NGVDTNE 2387 Score = 15.8 bits (29), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 187 VTGHHLKFTA 196 V HH+KF A Sbjct: 4897 VDRHHIKFPA 4868 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCJ_ECOLI Q46899 Uncharacterized protein ygcJ (363 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.053 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.9 bits (50), Expect = 0.053, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 12/18 (66%) Frame = -1 Query: 23 MNMQKDAIFGGKRRVRIS 40 N+ +D FGG RRV +S Sbjct: 4153 FNISRDFRFGGNRRVLLS 4100 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 12/23 (52%) Frame = -2 Query: 50 KSGYYAQNIGESSLRTIHLAQLR 72 KSG G +RT+HL L+ Sbjct: 3813 KSGVPGLLCGYCLVRTLHLFHLQ 3745 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCK_ECOLI P76632 Uncharacterized protein ygcK (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +3 Query: 40 FYRLVQPFGWENPRHQQALLR 60 F+ L +PF NP H + L+ Sbjct: 3852 FWLL*KPFLMRNPFHVRRFLK 3914 Score = 16.9 bits (32), Expect = 2.7, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 14/34 (41%) Frame = -3 Query: 40 FYRLVQPFGWENPRHQQALLRMVFCLSAGKNVIR 73 F ++P + H A L FC + VIR Sbjct: 5141 FLLFLEPMWSVHSGHDHAALEASFCQNYQFPVIR 5040 Score = 16.2 bits (30), Expect = 4.2, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 94 SGRINER 100 +GR+NER Sbjct: 280 AGRLNER 300 Score = 15.4 bits (28), Expect = 8.4, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +3 Query: 29 SEPDELRDIPAFYRLV 44 +EP ++ + A RLV Sbjct: 939 TEPMKMSPLQAVIRLV 986 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCL_ECOLI Q46901 Uncharacterized protein ygcL (502 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.3, Method: Compositional matrix adjust. Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 3/40 (7%) Frame = -1 Query: 247 IGKCSCCGQ---ESNLRYTGFLKEKFTFTVNGLWPHPHSP 283 +G+C C ++ L + GFL + L+ HP P Sbjct: 3946 LGRCR*CNF*CFKNLLTWKGFLIRNGFYNSQNLFVHPKLP 3827 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCN_ECOLI Q46904 Probable electron transfer flavoprotein-quinone oxidoreductase ygcN (1.5.5.-) (423 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.22 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.22, Method: Compositional matrix adjust. Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 2/30 (6%) Frame = -3 Query: 63 LTAPLER--RITHESLSLLTPDGVTTFSSL 90 L AP++R + H +SLL G FSSL Sbjct: 2879 LCAPIQR*VLVYH*GISLLGFGGALIFSSL 2790 Score = 18.9 bits (37), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -3 Query: 123 ATVDALYEENGRVCGV 138 ATV Y + R CG+ Sbjct: 5369 ATVITHYRQTSRYCGL 5322 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 10/23 (43%) Frame = -2 Query: 23 CARAGLSVLLLERAEIPGSKNLS 45 C AGL LLL R L+ Sbjct: 5886 CLTAGLVTLLLSRQFFLFYNRLT 5818 Score = 17.7 bits (34), Expect = 4.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = -3 Query: 355 LQRYQHVP 362 ++RY+HVP Sbjct: 1211 VKRYRHVP 1188 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCO_ECOLI Q46905 Ferredoxin-like protein ygcO (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCP_ECOLI Q46906 Uncharacterized protein ygcP (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCQ_ECOLI Q46907 Putative electron transfer flavoprotein subunit ygcQ (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +1 Query: 277 LVTNIHADCQ 286 +VTN H+D + Sbjct: 841 MVTNYHSDAK 870 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 16/32 (50%) Frame = +1 Query: 235 AALMAGVRNSKFVVAINHDASAAVFSQADVGV 266 A L+A K ++ ++ A+ S D+GV Sbjct: 6412 AQLVAEEMGHKVILRRENELEEALMSDRDMGV 6507 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCR_ECOLI Q46908 Putative electron transfer flavoprotein subunit ygcR (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.11, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 12/16 (75%) Frame = +2 Query: 129 GQNGQTPFLLAEMLGW 144 G+NGQ L++++ GW Sbjct: 4826 GRNGQNVRLVSQLSGW 4873 Score = 20.8 bits (42), Expect = 0.28, Method: Compositional matrix adjust. Identities = 10/42 (23%), Positives = 16/42 (38%) Frame = -1 Query: 157 ALFITLEQRTEHGLRCCRVRLPAVIAVRQCGEVALPVPGMRQ 198 ALFI + +H RC L + + + P +R Sbjct: 4978 ALFINFKMFDKHINRCTGFSLAFFLKLVDRHHIKFPATQLRN 4853 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = +2 Query: 181 IAVRQCGEVALP 192 IAV GEV LP Sbjct: 6107 IAVVAAGEVKLP 6142 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCS_ECOLI Q46909 Inner membrane metabolite transport protein ygcS (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCU_ECOLI Q46911 Uncharacterized FAD-linked oxidoreductase ygcU (1.-.-.-) (484 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%) Frame = -1 Query: 422 NKIICEETIRLGGSMVHHH 440 ++IC TI G ++V HH Sbjct: 916 ERLICILTIGDGEALVLHH 860 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGCW_ECOLI P76633 Uncharacterized oxidoreductase ygcW (1.-.-.-) (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.36, Method: Compositional matrix adjust. Identities = 9/15 (60%), Positives = 10/15 (66%) Frame = -2 Query: 148 IINICSLFSYLGGQW 162 IIN CSLFS +W Sbjct: 6987 IINPCSLFS*YVNKW 6943 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 5/22 (22%), Positives = 13/22 (59%) Frame = -2 Query: 140 MIPQKSGKIINICSLFSYLGGQ 161 M+P +++ + +F+ GG+ Sbjct: 1320 MLPCCRSRLVTVIPIFANAGGR 1255 Score = 15.8 bits (29), Expect = 9.9, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 7/11 (63%) Frame = +2 Query: 161 QWSPAYSATKH 171 +W+ + TKH Sbjct: 1811 KWNDCFQTTKH 1843 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDB_ECOLI P08370 Uncharacterized protein ygdB (Precursor) (135 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.12, Method: Composition-based stats. Identities = 8/10 (80%), Positives = 10/10 (100%) Frame = +1 Query: 84 RLLADNEALL 93 RLL+DNEAL+ Sbjct: 1819 RLLSDNEALV 1848 Score = 17.7 bits (34), Expect = 1.1, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = -1 Query: 81 VCLRLLADNEALLI 94 +C+ + D EAL++ Sbjct: 907 ICILTIGDGEALVL 866 Score = 15.8 bits (29), Expect = 5.0, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 123 FCPLKERALCQLP 135 F PL+ A +LP Sbjct: 4842 F*PLRPIACAELP 4804 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDD_ECOLI P0ADR2 UPF0382 inner membrane protein ygdD (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDH_ECOLI P0ADR8 UPF0717 protein ygdH (454 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.92, Method: Compositional matrix adjust. Identities = 10/38 (26%), Positives = 19/38 (50%) Frame = -3 Query: 336 VKENRRDTGDAYSFNWSMRIAPDLQMPFEPSHENMANL 373 +KE+ R + F+ R+AP +P+H + +L Sbjct: 1565 IKEDHRFLFILHHFDSMQRVAP------QPAHHFVVDL 1470 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -1 Query: 74 LELINPPEEAFVDGRII 90 ELI+PP A R + Sbjct: 55 FELISPPFRAINHNRCV 5 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDI_ECOLI P65292 Uncharacterized lipoprotein ygdI (Precursor) (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDK_ECOLI P0AGF2 Uncharacterized sufE-like protein ygdK (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.50, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -1 Query: 1 MTNPQFAGHP 10 + NP F+ HP Sbjct: 472 IVNPHFSRHP 443 Score = 18.1 bits (35), Expect = 0.96, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 53 AQAKEIAGCEN 63 A+ +IAGC N Sbjct: 5347 AKPADIAGCHN 5315 Score = 17.7 bits (34), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 10/19 (52%) Frame = +1 Query: 15 VTAETLRNTFAPLTQWEDK 33 +TAETLR LT K Sbjct: 379 ITAETLRLPMTSLTLVNQK 435 Score = 16.5 bits (31), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 20 LRNTFAPLTQWED 32 LRN + + W+D Sbjct: 697 LRNIVSSML*WQD 659 Score = 15.8 bits (29), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -1 Query: 78 HFFGDSEGRIVRGLL 92 HFF ++ RGL+ Sbjct: 3319 HFFQITKNPETRGLI 3275 Score = 15.0 bits (27), Expect = 9.6, Method: Composition-based stats. Identities = 9/14 (64%), Positives = 11/14 (78%), Gaps = 2/14 (14%) Frame = +2 Query: 83 SEGRIV--RGLLAV 94 S+ +IV RGLLAV Sbjct: 6170 SQKQIVKKRGLLAV 6211 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDL_ECOLI Q46927 Uncharacterized protein ygdL (268 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = -3 Query: 237 GFGAATMVTATFGFVAVSHA 256 GFG A + ++ G + SH+ Sbjct: 2822 GFGGALIFSSLAG*LRFSHS 2763 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDQ_ECOLI P67127 UPF0053 inner membrane protein ygdQ (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDR_ECOLI P65294 Uncharacterized lipoprotein ygdR (Precursor) (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.94 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.94, Method: Composition-based stats. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = +3 Query: 4 WAVIISAVGLAFAVSGCS 21 W ISA GLA + CS Sbjct: 5319 WQPAISA-GLAIMRNNCS 5369 Score = 15.8 bits (29), Expect = 1.8, Method: Composition-based stats. Identities = 5/19 (26%), Positives = 12/19 (63%) Frame = +2 Query: 42 IDDDTGLVSYHDQQGNAMQ 60 +D+D ++ ++GN+ Q Sbjct: 4763 VDEDAKTMNIAVEEGNSAQ 4819 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGDT_ECOLI A5A622 Uncharacterized protein ygdT (48 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.27, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 16 LFPFTALT 23 +FP TALT Sbjct: 2775 IFPLTALT 2752 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEA_ECOLI P03813 Uncharacterized protein ygeA (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +3 Query: 170 FTEASRAYCAQVIA 183 FT+ YCA IA Sbjct: 2544 FTDFDWTYCAYRIA 2585 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%), Gaps = 4/16 (25%) Frame = +1 Query: 164 ELCL----GQFTEASR 175 ELC G+FTEA R Sbjct: 241 ELCQRVAEGKFTEAGR 288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEF_ECOLI Q46786 Putative uncharacterized protein ygeF (148 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 30 SVNPVKITMGSG 41 SVN + MGSG Sbjct: 6038 SVNSICSAMGSG 6003 Score = 16.2 bits (30), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 11 PLQPLV 16 P+QPLV Sbjct: 743 PIQPLV 760 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEG_ECOLI Q46787 Uncharacterized protein ygeG (163 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.4, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +1 Query: 45 AYAFDYHEKGN 55 A FD+ +KG Sbjct: 160 ATGFDFIQKGG 192 Score = 16.5 bits (31), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -1 Query: 91 QQAYDLYKLSYNYFPYDDYS 110 ++ Y L+ + YFP DY Sbjct: 6169 RRVYCLFSVW*FYFPGCDYG 6110 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEH_ECOLI P76639 Uncharacterized protein ygeH (458 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 11/42 (26%), Positives = 19/42 (45%) Frame = +1 Query: 179 PDYFVTGRINQNNAVNTLYIELIDAKNLFLIASNHLPVDELH 220 P+Y V N +A++ I+ D K + NH ++ L Sbjct: 1666 PNYLVLEFRNDTSAMDGQRIQAFDRKGMINNKFNHFIMNRLE 1791 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEI_ECOLI Q46789 Uncharacterized protein ygeI (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.11 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.11, Method: Composition-based stats. Identities = 8/13 (61%), Positives = 10/13 (76%) Frame = +1 Query: 32 NTSATDTDQIQAF 44 +TSA D +IQAF Sbjct: 1696 DTSAMDGQRIQAF 1734 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEK_ECOLI Q46791 Putative uncharacterized response regulatory protein ygeK (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +2 Query: 102 KGCVWKTSH 110 +GC W+ H Sbjct: 3713 QGCRWRNDH 3739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEN_ECOLI Q46793 Putative uncharacterized protein ygeN (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEO_ECOLI Q46795 Putative uncharacterized protein ygeO (Fragment) (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.0, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = +3 Query: 16 CHFYRERFAERGFFYKVP 33 CH+ E R + KVP Sbjct: 663 CHYSMELTILRKYHSKVP 716 Score = 16.5 bits (31), Expect = 2.5, Method: Composition-based stats. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +3 Query: 125 ISCKW 129 ISCKW Sbjct: 1401 ISCKW 1415 Score = 16.5 bits (31), Expect = 3.0, Method: Composition-based stats. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = -1 Query: 1 INNWNLLPLICLLSGCHFYRE 21 + N ++ PL+ CHF E Sbjct: 5914 LQNVSVQPLLPHGGSCHFVVE 5852 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEP_ECOLI Q46796 Uncharacterized protein ygeP (99 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEQ_ECOLI Q46797 Putative uncharacterized protein ygeQ (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 16/24 (66%), Gaps = 1/24 (4%) Frame = +1 Query: 173 PDQIKRM-QDVISNPKRLDGIPVQ 195 P Q++R+ D + KRL+ IP++ Sbjct: 1804 PTQMERLLSDNEALVKRLEMIPIE 1875 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGER_ECOLI Q46798 Uncharacterized lipoprotein ygeR (Precursor) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.62, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = -1 Query: 188 YITAYAHNDTMLVNNGQS 205 + Y H + VNN +S Sbjct: 4804 FFNCYVHRFCVFVNNDRS 4751 Score = 19.2 bits (38), Expect = 0.99, Method: Compositional matrix adjust. Identities = 8/10 (80%), Positives = 8/10 (80%) Frame = -3 Query: 238 PLRYLPPQGS 247 P R LPPQGS Sbjct: 2981 PNRALPPQGS 2952 Score = 16.2 bits (30), Expect = 6.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 170 GNQLRGYG 177 GN+ RG+G Sbjct: 6738 GNRYRGFG 6761 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEV_ECOLI Q46802 Uncharacterized sigma-54-dependent transcriptional regulator ygeV (592 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEW_ECOLI Q46803 Uncharacterized protein ygeW (396 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGEY_ECOLI P65807 Uncharacterized protein ygeY (403 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 10/46 (21%) Frame = -3 Query: 63 GNVLGYIGHGPRLVA-MDAHI--DTVGIGNIKN------WD-FDPY 98 GN L I HG LVA + HI D + + +I W+ FDPY Sbjct: 3569 GNRLFNI*HGTHLVANICTHINGDAIAVIDINTQCGLAPWNKFDPY 3432 Score = 18.5 bits (36), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +3 Query: 277 DEIRALPAVQKAN 289 DE+ AL ++KAN Sbjct: 3759 DEVFALSNIRKAN 3797 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 9/19 (47%) Frame = +2 Query: 344 KWTFSTNGVSIMGRHGIPV 362 KW + V GR+ I V Sbjct: 932 KWNRADEDVPFAGRYQISV 988 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFA_ECOLI P0AC28 Uncharacterized protein ygfA (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +1 Query: 82 HPQSELVMNRLKIHEP 97 HP EL + ++H+P Sbjct: 1948 HPLFELFLKNDQLHDP 1995 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFB_ECOLI P0A8C4 UPF0149 protein ygfB (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.042 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.042, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = +1 Query: 92 DGDDVSVFDRADALAGWVNHFLLG 115 DG + FDR + NHF++ Sbjct: 1711 DGQRIQAFDRKGMINNKFNHFIMN 1782 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFF_ECOLI P52037 Uncharacterized oxidoreductase ygfF (1.-.-.-) (247 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 3/66 (4%) Frame = +3 Query: 46 ITQAGGKAFVLQADISDENQVVAMFTAIDQHDEPLAALVNNAGI---LFTQCTVENLTAE 102 I G + AD+S QV A+ + P V++ G+ LFT + E Sbjct: 3480 IDNCDGVTVDMCADVS--YQVSAVLDVEEPITCPYNLEVSSPGLERLLFTAEDYTDYLGE 3653 Query: 103 RINRVL 108 RIN L Sbjct: 3654 RINLTL 3671 Score = 16.2 bits (30), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 5/10 (50%) Frame = -2 Query: 112 VTGYFLCCRE 121 VT CCR Sbjct: 1329 VTAMLPCCRS 1300 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFH_ECOLI P52043 Uncharacterized protein ygfH (492 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.5, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 176 VIPGAPPRRNSVSIF 190 + P PR+ S+SIF Sbjct: 2270 ITPPKLPRKRSLSIF 2226 Score = 17.7 bits (34), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +3 Query: 148 PTWLLRAKKVIIELN 162 P WL + KKV++ N Sbjct: 5115 PHWL*KKKKVLVITN 5159 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFI_ECOLI P52044 Uncharacterized HTH-type transcriptional regulator ygfI (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFJ_ECOLI Q46810 Uncharacterized protein ygfJ (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.0, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +3 Query: 40 LQFCSRIILVTGY 52 + FC IIL++ + Sbjct: 4686 ISFCGMIILLSSF 4724 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 13/19 (68%) Frame = +3 Query: 100 GDMPTLTIDIFRKIWSLRN 118 G+M +T+D ++++L N Sbjct: 3726 GEMIIVTVDGKDEVFALSN 3782 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFK_ECOLI Q46811 Uncharacterized protein ygfK (1032 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFM_ECOLI P64557 Uncharacterized protein ygfM (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.94 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.94, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +2 Query: 50 QDLELDWVDWD 60 Q L DW+ W+ Sbjct: 908 QTLTTDWIKWN 940 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +3 Query: 147 RLLTEIIIKDPYRTC 161 R + + I DPYR C Sbjct: 1836 RSIGKKIRDDPYRMC 1880 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 13/21 (61%), Gaps = 3/21 (14%) Frame = +3 Query: 59 WDNGALRIGA---MSRLQPLR 76 W++GAL G+ + R +P + Sbjct: 231 WNDGALSTGS*R*IYRSRPFK 293 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +2 Query: 249 ADCQQAGEE 257 CQ++GEE Sbjct: 6911 VSCQKSGEE 6937 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFO_ECOLI P67444 Putative purine permease ygfO (466 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFQ_ECOLI Q46817 Putative permease ygfQ (455 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 2/34 (5%) Frame = +2 Query: 233 HGL--VAMPSLTGEDGKSLIFSLDIMGALQPTVL 264 HG +A S G GK L DI +QP VL Sbjct: 674 HGTYDIAQVSQQGAVGKQL----DIRPPIQPLVL 763 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFS_ECOLI Q46819 Putative electron transport protein ygfS (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.93, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = -1 Query: 5 IIVNPADCIGCRT 17 II PAD GC Sbjct: 5353 IIAKPADIAGCHN 5315 Score = 15.8 bits (29), Expect = 5.3, Method: Compositional matrix adjust. Identities = 8/38 (21%), Positives = 13/38 (34%) Frame = -2 Query: 18 CEVACVVAHPSEQELNADVFLPRLKVQRLDSISAPVMC 55 C + C + D+ + V DS+ V C Sbjct: 4218 CTITCFAVWVVMRSKTTDLIWSSI*VGISDSVEIGVFC 4105 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFT_ECOLI Q46820 Uncharacterized protein ygfT (639 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFU_ECOLI Q46821 Putative purine permease ygfU (482 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.090 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.090, Method: Compositional matrix adjust. Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 1/47 (2%) Frame = +2 Query: 165 VGIDWAAGGKGNPQYGNPVYLGIS-FAVLIFILLITRYAKGFMSNVA 210 V +DWA G K P+Y ++ I+ F ++I +L T G+ S VA Sbjct: 2966 VVLDWAYGFKSRPRYQ---FIEIACFWMMINVLFATFSDAGWSSLVA 3097 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +2 Query: 223 WMMNEVNLSGLHDASWFAIVT 243 WMM V + DA W ++V Sbjct: 3035 WMMINVLFATFSDAGWSSLVA 3097 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -2 Query: 281 IVGRKLSSHDII 292 I+GR +HDI Sbjct: 6777 IIGRNNQNHDIC 6742 Score = 16.9 bits (32), Expect = 8.1, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 10/24 (41%) Frame = -1 Query: 154 VITSIGLSIIQVGIDWAAGGKGNP 177 +T LSI +DW G P Sbjct: 3505 TVTPSQLSI*IRSVDWRPGINSTP 3434 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFX_ECOLI Q46824 Uncharacterized protein ygfX (135 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +2 Query: 13 RAQWLSLLIHGLV 25 RA +LSL + GL+ Sbjct: 3557 RADYLSLQLRGLI 3595 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFY_ECOLI P64559 UPF0350 protein ygfY (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.27, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +1 Query: 5 NKARIHWACRR 15 N + WAC+R Sbjct: 337 NPIAVKWACKR 369 Score = 16.2 bits (30), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/26 (23%), Positives = 10/26 (38%) Frame = -1 Query: 41 RIFIRLLECDDPDLFNWLMNHGKPAD 66 R+ L C + DL+ + P Sbjct: 2278 RLLSHRLNCHESDLYPSFLTSFYPTS 2201 Score = 15.4 bits (28), Expect = 3.6, Method: Composition-based stats. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +2 Query: 57 WLMNHGKPA 65 W++N KP+ Sbjct: 1709 WMVNVFKPS 1735 Score = 14.2 bits (25), Expect = 7.5, Method: Compositional matrix adjust. Identities = 12/46 (26%), Positives = 17/46 (36%) Frame = +1 Query: 42 IFIRLLECDDPDLFNWLMNHGKPADAELEMMVRLIQTRNRERGPVA 87 I RL P L++ + LEM+ RNR G + Sbjct: 1774 IMNRLEAAGIPTQMERLLSDNEALVKRLEMIPIECVIRNRTAGSLV 1911 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGFZ_ECOLI P0ADE8 tRNA-modifying protein ygfZ (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 12/27 (44%) Frame = +1 Query: 277 GTVLAAVKLEDGXXXXXXXMNNDMEPD 303 G +L KLE G + ++ PD Sbjct: 2113 GLILVDFKLEFGLFENKITLGDEFSPD 2193 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 14/33 (42%), Positives = 18/33 (54%) Frame = -2 Query: 209 FIPQATNLQALGGISFKKGCYTGQEMVARAKFR 241 FIPQAT A+GG K G + +AKF+ Sbjct: 2214 FIPQAT---AIGG----KLITQGDFIFKQAKFQ 2137 Score = 16.5 bits (31), Expect = 7.5, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +2 Query: 250 LLAGSASRLP 259 LL SASR+P Sbjct: 422 LLIRSASRMP 451 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGC_ECOLI P11664 Uncharacterized protein yggC (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Compositional matrix adjust. Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 11/60 (18%) Frame = +1 Query: 173 FIHAPAQILRERLISRKI--------AGGLTRQVA-EAFYART--DGPNVERVLMNSRQA 221 H P Q+ + + RKI +GG ++ V E RT + PN E L N+ +A Sbjct: 5527 LKHEPGQVPNKLTLQRKIRSTLNVPSSGGKSKSVQIEIRRKRTYINTPNAE--LANTEKA 5700 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +2 Query: 58 TLTTFWEYLAQQDPELP 74 TLTT W + D ++P Sbjct: 911 TLTTDWIKWNRADEDVP 961 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGD_ECOLI P11663 Uncharacterized protein yggD (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGE_ECOLI P0ADS6 Uncharacterized protein yggE (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 16/29 (55%), Gaps = 2/29 (6%) Frame = +3 Query: 195 PSPMVRMMKADAAPV--SAQETYEQAAIQ 221 PSP+VRM + P+ + E + + +Q Sbjct: 882 PSPIVRMQIKRSLPIG*NGTEPMKMSPLQ 968 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGF_ECOLI P21437 Uncharacterized protein yggF (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.34, Method: Compositional matrix adjust. Identities = 18/85 (21%), Positives = 35/85 (41%) Frame = +1 Query: 234 FCQAKGDYTENRQIAEQERKRCKAMGVDVNRVYSLDELVRGNDILFSATGVTGGELVNGI 293 ++K D E R + + +++ + N+ + V D++ T VT EL N + Sbjct: 6163 LSESKADREEARAVGRKSKRKPSTLQQSFNKPVA----VVNRDVIIGET-VTVAELANKM 6327 Query: 294 QQTANGVRTQTLLIGGADQTCNIID 318 + V + +GG +ID Sbjct: 6328 AVKGSQVIKTMMKLGGMATINQVID 6402 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGG_ECOLI P25894 Uncharacterized metalloprotease yggG (3.4.24.-) (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -2 Query: 38 YSLSDAQVKTLSDQ 51 +SLS V TLS Q Sbjct: 4911 FSLSSLIVITLSSQ 4870 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGL_ECOLI P38521 Uncharacterized protein yggL (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 12/21 (57%) Frame = +2 Query: 76 KCTEEHQAIVRKWLEERKLDE 96 KC E + + ++E ++DE Sbjct: 4910 KCQAETRTAIDMFIEHLEIDE 4972 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGM_ECOLI P46142 Uncharacterized protein yggM (335 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGN_ECOLI P0ADS9 Uncharacterized protein yggN (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 16/66 (24%), Positives = 30/66 (45%) Frame = +1 Query: 71 EQAKDYQAELRSTLPWIDEGAKSRVEKARIALDKIIVQEMGESSKMRSRLTKLDAQLKEQ 130 EQAK A+ + D +K VEK K+ Q+ + ++ + +L ++ + Sbjct: 5758 EQAKSESAKEANAKKIADTKSKPIVEK-----KKLTTQQQSDKTRREAEAAELKRSVERE 5922 Query: 131 MNRIIE 136 + R IE Sbjct: 5923 VRRKIE 5940 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGP_ECOLI P52048 Uncharacterized protein yggP (425 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGR_ECOLI P52052 Uncharacterized protein yggR (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.094 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.094, Method: Compositional matrix adjust. Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 17/83 (20%) Frame = +1 Query: 192 EDPDVILLGELRDSETI---------RLALTAAETGHLVLATLHTRGAAQAVERLVDSFP 242 EDP+ ++L D+ + R + + H ++ L G +ERL+ Sbjct: 1660 EDPNYLVLEFRNDTSAMDGQRIQAFDRKGMINNKFNHFIMNRLEAAGIPTQMERLLSDNE 1839 Query: 243 AQEKD--------PVRNQLAGSL 257 A K +RN+ AGSL Sbjct: 1840 ALVKRLEMIPIECVIRNRTAGSL 1908 Score = 18.5 bits (36), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +1 Query: 52 LDDDQRAILLENGQ 65 LDDDQR I G+ Sbjct: 3034 LDDDQRTICYVFGR 3075 Score = 17.7 bits (34), Expect = 3.5, Method: Compositional matrix adjust. Identities = 9/13 (69%), Positives = 9/13 (69%), Gaps = 4/13 (30%) Frame = +1 Query: 50 EWL----DDDQRA 58 EWL DDDQRA Sbjct: 4864 EWLGT*CDDDQRA 4902 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +1 Query: 218 GHLVLATLHTRGAAQAVERLV 238 GH ++ RG AQA + +V Sbjct: 6697 GHAAFTSMRARG-AQATDIVV 6756 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 12/22 (54%) Frame = +1 Query: 111 VLPELLKSENGLILVTGATGSG 132 +LPE ++ + V+ G+G Sbjct: 6913 ILPEEWGGDSPFVHVSAKKGTG 6978 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGS_ECOLI P67080 UPF0001 protein yggS (234 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = +2 Query: 57 NYVQEGVDKIR 67 N + EG+DKIR Sbjct: 1100 NKLIEGLDKIR 1132 Score = 15.8 bits (29), Expect = 8.3, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +2 Query: 216 STMVRIGTAIFGARDYSK 233 ST +GT I R YS+ Sbjct: 3401 STGKSLGTQISRGRIYSR 3454 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGT_ECOLI P64564 Uncharacterized protein yggT (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.89, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 1/23 (4%) Frame = +2 Query: 24 WMQWAHCDFYNPFS-QFVVKVTQ 45 W++W D PF+ ++ + V Q Sbjct: 926 WIKWNRADEDVPFAGRYQISVQQ 994 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 2/36 (5%) Frame = -3 Query: 20 LLRIWMQWAHCDFYNPFSQ--FVVKVTQPIIGPLRR 53 L I+ C+ + +S+ F + V P+I PL++ Sbjct: 1115 LQSIYST*HDCNVVSRYSK*PFFLVVVNPVISPLKQ 1008 Score = 16.5 bits (31), Expect = 3.5, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -2 Query: 107 FWVLLVMAIMSWVSQ 121 FW I SW++Q Sbjct: 2820 FWRRAYFLIFSWLTQ 2776 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGU_ECOLI P52060 UPF0235 protein yggU (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +3 Query: 61 VAKSQVVIEKGELGRH 76 + K + GE+GRH Sbjct: 2904 LKKCYLQYRGGEIGRH 2951 Score = 14.6 bits (26), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -1 Query: 42 PVDGQANSHLV 52 PVD + HL+ Sbjct: 256 PVDKAPSFHLL 224 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGGW_ECOLI P52062 Oxygen-independent coproporphyrinogen-III oxidase-like protein yggW (1.3.99.-) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = +2 Query: 189 PHLSWYQLTIEPNTLFGS 206 PHL YQL E + S Sbjct: 6941 PHLFTYQLKREQGLMIYS 6994 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHA_ECOLI P0AG84 Uncharacterized oxidoreductase yghA (1.-.-.-) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.0, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +3 Query: 38 EKTYVGS 44 EKT++GS Sbjct: 3213 EKTFIGS 3233 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHB_ECOLI P0AA60 Inner membrane protein yghB (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 79 ASLGCWLSYI 88 A+L CW++ I Sbjct: 6824 AALACWMASI 6795 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHD_ECOLI Q46832 Putative general secretion pathway protein M-type yghD (178 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 14/35 (40%) Frame = +1 Query: 22 EHWLAQHLAGRSPREKGMLLAAVVFLFSVGYYVLI 56 EH+L GR + L L S+G LI Sbjct: 2473 EHFLCGDPIGRIGTTMYVTLLVFFLLISIGLIALI 2577 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 1/46 (2%) Frame = +3 Query: 116 VIRRIADRGE-NIQVWIEPVVFNDLLKWLNALDEKYALRVTQIDVS 160 VIR + + E ++ W V+N+ KWL LR+++ +++ Sbjct: 972 VIRLVCNSKEISLL*W*NHWVYNNKKKWL--------LRISRYNIT 1085 Score = 15.8 bits (29), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 8/17 (47%) Frame = +1 Query: 10 FQQWRERQLSRGEHWLA 26 + QW + LS WL Sbjct: 4825 WAQWSKCTLSFSAEWLG 4875 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHE_ECOLI Q46833 Putative general secretion pathway protein L-type yghE (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.28, Method: Compositional matrix adjust. Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 5/63 (7%) Frame = +1 Query: 161 EQVAQSRTQAEEQFLTLFPEQ---KRIVNLRSQVTMALKKY--RPQADDTRLLAELSAIA 215 EQV + +AEEQ + ++ K+I + +S+ + KK + Q+D TR AE + + Sbjct: 5725 EQVEKKPAKAEEQAKSESAKEANAKKIADTKSKPIVEKKKLTTQQQSDKTRREAEAAELK 5904 Query: 216 STL 218 ++ Sbjct: 5905 RSV 5913 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHF_ECOLI Q46834 Putative general secretion pathway protein C-type yghF (Precursor) (288 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.45, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +3 Query: 217 RSLFDASGFKEG 228 R FD+SGF+ G Sbjct: 2106 RCWFDSSGFQTG 2141 Score = 16.9 bits (32), Expect = 5.2, Method: Compositional matrix adjust. Identities = 9/38 (23%), Positives = 17/38 (44%) Frame = -3 Query: 21 ISFSAEYTAVSQPVNKPSRVDAKTFDKNDVQLISQQNW 58 ISFS T + KP+ + +V++ + N+ Sbjct: 5513 ISFSC*VTELVSDFFKPASANCCMRRSTEVEISAASNF 5400 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHG_ECOLI Q46835 Uncharacterized lipoprotein yghG (Precursor) (136 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +2 Query: 85 FLTSYQR 91 FLT+YQR Sbjct: 2321 FLTTYQR 2341 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHO_ECOLI Q46840 Putative uncharacterized protein yghO (Fragment) (366 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 12/30 (40%) Frame = +1 Query: 282 WRLKVSGVRTARVPLMGVRDEYQFSRIGPV 311 W L+ TAR VR S +G + Sbjct: 676 WNLRYCASITARCRWQTVRHSATNSTLGTI 765 Score = 16.5 bits (31), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 10/13 (76%) Frame = -2 Query: 32 EHLSAKNPGTDHI 44 +HL+ +PG+ H+ Sbjct: 3555 QHLARHSPGS*HL 3517 Score = 16.5 bits (31), Expect = 9.5, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 10/15 (66%) Frame = +1 Query: 59 GRITAQIDTLHRERY 73 GR+ ++ LH+E + Sbjct: 283 GRLNERLMPLHKELF 327 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHQ_ECOLI Q46841 Inner membrane protein yghQ (355 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.80, Method: Compositional matrix adjust. Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 14/77 (18%) Frame = +2 Query: 58 VQSYAKSIS-DFIKFQT-WQLVVQYGTPALTNNNPQQFRN------------VVSFSFSL 103 ++ KS+ D I QT Q++VQ A +QFR V S L Sbjct: 4148 IEDQIKSVVFDRITTQTAKQVIVQKVREAERAVVIEQFREQEGKIVTATVKKVSRESIIL 4327 Query: 104 DIVSGAVAIVGGIALLP 120 D+ + A I+G +LP Sbjct: 4328 DLGNNAEGIIGQEDMLP 4378 Score = 19.6 bits (39), Expect = 1.1, Method: Compositional matrix adjust. Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 6/43 (13%) Frame = -1 Query: 76 LVVQYGTPALTNNNPQ------QFRNVVSFSFSLDIVSGAVAI 112 L+ +YGTPA N + Q FR+ F+ S +V I Sbjct: 1705 LMYRYGTPAPNN*DLQ*CRQF*PFRDTTRLIFASQYGSNSVII 1577 Score = 17.3 bits (33), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +3 Query: 241 FVWSTNIAHSIW 252 F+WS + +S+W Sbjct: 2613 FIWSGCLLNSVW 2648 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHR_ECOLI P64572 Uncharacterized ATP-binding protein yghR (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.19, Method: Compositional matrix adjust. Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 1/29 (3%) Frame = +3 Query: 108 SLRRMANLRKVQRL-AQSGVLVVSDRFPQ 135 SLR+ A L+ VQRL S +L + PQ Sbjct: 4899 SLRKNAKLKPVQRLICLSNILKLMKSAPQ 4985 Score = 19.2 bits (38), Expect = 0.87, Method: Compositional matrix adjust. Identities = 11/39 (28%), Positives = 17/39 (43%) Frame = +1 Query: 96 PALWAAVIMYCFSLRRMANLRKVQRLAQSGVLVVSDRFP 134 PA+ A + YC S+ + V+ A + L FP Sbjct: 661 PAITAWNLRYCASITARCRWQTVRHSATNSTLGTIKGFP 777 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHS_ECOLI Q46843 Uncharacterized ATP-binding protein yghS (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 15/29 (51%) Frame = -2 Query: 167 SYLPVLLIRLGIDEQTAFARKPDHQLAAL 195 ++ P+ IRL + AR ++AAL Sbjct: 4626 THAPIGSIRLSLVLTAILARDAGSRIAAL 4540 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = +1 Query: 45 EHIYLGQSSGRIG 57 EH G GRIG Sbjct: 2473 EHFLCGDPIGRIG 2511 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +3 Query: 89 PGNITALVIYLLSC 102 PG + L IY+ +C Sbjct: 3450 PGRQSTLRIYIDNC 3491 Score = 16.2 bits (30), Expect = 7.0, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 10/12 (83%) Frame = +3 Query: 108 FRKMLCKSQQGF 119 +RK++ +++GF Sbjct: 5046 YRKLIVLTKRGF 5081 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHT_ECOLI Q46844 Uncharacterized ATP-binding protein yghT (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 11/20 (55%), Gaps = 1/20 (5%) Frame = +1 Query: 102 ACRRRGLIVL-TDRYPQDQI 120 AC+R GLI T R P + Sbjct: 358 ACKRLGLITAETLRLPMTSL 417 Score = 16.2 bits (30), Expect = 6.6, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 7/7 (100%) Frame = +3 Query: 128 VFPPNVE 134 +FPPN++ Sbjct: 4116 LFPPNLK 4136 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHU_ECOLI Q46845 Uncharacterized GST-like protein yghU (288 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.34, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = -1 Query: 35 EKTLPVGKHPLQLYSLGTP 53 ++ L HPL +Y GTP Sbjct: 1738 DRRLEYVDHPLLMYRYGTP 1682 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHW_ECOLI P64574 Uncharacterized protein yghW (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.20, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 51 QLSAWEAGILT 61 QLS WE ++T Sbjct: 4859 QLSGWELNVMT 4891 Score = 15.0 bits (27), Expect = 4.5, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 7/14 (50%) Frame = -3 Query: 19 DSAVNVTKFCADYK 32 D A FC +Y+ Sbjct: 5096 DHAALEASFCQNYQ 5055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHX_ECOLI Q7DFU6 Putative uncharacterized protein yghX (278 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = -3 Query: 190 PFYGRQAPTADVAKIEAPL 208 P +AP + A I APL Sbjct: 2648 PNRVEEAPAPNEAPISAPL 2592 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGHZ_ECOLI Q46851 Uncharacterized protein yghZ (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = -1 Query: 211 TLQNNGVGC 219 TL N+GVGC Sbjct: 1255 TLPNDGVGC 1229 Score = 16.9 bits (32), Expect = 6.8, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -3 Query: 81 LREDFAAYRDELII 94 +R+D AYR ++ Sbjct: 5255 VRQDLPAYRPRTLL 5214 Score = 16.5 bits (31), Expect = 8.9, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = +2 Query: 189 LLIHQPSYNLLNRWVDK 205 LLI + LL +WV K Sbjct: 6395 LLIRKQRNWLLKKWVIK 6445 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIA_ECOLI Q79CP2 Putative uncharacterized protein ygiA (86 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 8.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 8.8, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +2 Query: 20 YLPHSSP 26 Y P SSP Sbjct: 6524 YAPPSSP 6544 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIB_ECOLI P0ADT2 UPF0441 protein ygiB (223 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -3 Query: 53 CSAANPGKSAECTTAY 68 CS+A G + C+T + Sbjct: 5762 CSSALAGFFSTCSTCF 5715 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIC_ECOLI P0ADT5 Uncharacterized protein ygiC (386 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 12/42 (28%), Positives = 20/42 (47%) Frame = +2 Query: 239 MLREMFSTKLEDAGVRWLEPAWKSIISNKALLPLLWEMFPNH 280 M+ +F+T DAG W S+++ +A P + P H Sbjct: 3041 MINVLFAT-FSDAG-------WSSLVARRAHNPKVAGSNPAH 3142 Score = 18.5 bits (36), Expect = 2.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 27 YGEPYWC 33 YG PY+C Sbjct: 1291 YGHPYFC 1271 Score = 17.7 bits (34), Expect = 4.2, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 15/29 (51%) Frame = -1 Query: 174 LHLTCCRDTVEDRGTIQYLQDCATEAEIA 202 LHL+CC +Q L+ A A+IA Sbjct: 5395 LHLSCC------SFLLQLLRIIAKPADIA 5327 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +3 Query: 339 HPLPKFGD 346 HP P FG+ Sbjct: 1230 HPTPSFGN 1253 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGID_ECOLI P24197 Uncharacterized protein ygiD (1.13.-.-) (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 15/24 (62%) Frame = +2 Query: 125 GVLIKMYPDADIPMVQLSIDSSKP 148 G+L ++ P+A P QL I S+P Sbjct: 4412 GILYEIRPEARGP--QLFISRSRP 4477 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 3/27 (11%) Frame = -1 Query: 175 VVHNLRTVKWHGDSSPYPWAT---SFN 198 V H+L T H ++ PY T SFN Sbjct: 4663 VRHSLNTCSPHPNTCPYRIDTLVVSFN 4583 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 7/10 (70%) Frame = -2 Query: 147 KPAAWHFEMG 156 + +AWHF + Sbjct: 4929 RVSAWHFSLS 4900 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIF_ECOLI P30871 Uncharacterized protein ygiF (ORFXE) (433 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.14, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 18/27 (66%) Frame = +1 Query: 152 FAEPICELELELLSGDTRAVLKLANQL 178 F +P+ + +++ G+T V +LAN++ Sbjct: 6247 FNKPVAVVNRDVIIGETVTVAELANKM 6327 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIH_ECOLI P60782 UPF0078 membrane protein ygiH (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -3 Query: 26 RLCGLP 31 R CGLP Sbjct: 5336 RYCGLP 5319 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 20 SAILVCRL 27 SAI+ CRL Sbjct: 1207 SAIVTCRL 1184 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 12 AYLCGSISS 20 + LC SISS Sbjct: 2474 SLLCASISS 2448 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIL_ECOLI P39834 Uncharacterized fimbrial-like protein ygiL (Precursor) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIM_ECOLI P0ADT8 Uncharacterized protein ygiM (Precursor) (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.63, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = +1 Query: 159 SVQLDDKQRTII 170 S+ LDD QRTI Sbjct: 3025 SLLLDDDQRTIC 3060 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIN_ECOLI P0ADU2 Probable quinol monooxygenase ygiN (QuMo) (1.-.-.-) (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.5, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 10 TRPGQHH 16 TRP +HH Sbjct: 6525 TRPRRHH 6545 Score = 15.4 bits (28), Expect = 4.3, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +1 Query: 66 WESIAHL 72 W S AHL Sbjct: 2029 WASEAHL 2049 Score = 15.0 bits (27), Expect = 5.6, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = -3 Query: 46 CAAGVSFQ 53 CA+ +SF Sbjct: 5525 CASNISFS 5502 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIQ_ECOLI Q46861 UPF0313 protein ygiQ (739 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -2 Query: 27 APFLPMSREEMDQLGW 42 AP+ P+ R+ + L W Sbjct: 5586 APYFPLQRKFIWHLTW 5539 Score = 18.1 bits (35), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 11/14 (78%) Frame = +1 Query: 712 ATAKKASSTQSRPV 725 A AKK + T+S+P+ Sbjct: 5788 ANAKKIADTKSKPI 5829 Score = 17.7 bits (34), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 285 KPWEKTYVLLPS 296 +PW ++LLP Sbjct: 6100 QPWHHFHLLLPE 6065 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIS_ECOLI Q46863 Putative binding protein ygiS (Precursor) (535 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -3 Query: 43 PGTLDPQKVEENTA 56 P LDP +VEE A Sbjct: 2663 PEPLDPNRVEEAPA 2622 Score = 17.7 bits (34), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 14/21 (66%), Gaps = 3/21 (14%) Frame = -1 Query: 500 IYYQPLIKLLK---PYVGGFP 517 + + P+++ LK P+V G+P Sbjct: 1858 LIFLPMLRCLKAVVPFVWGYP 1796 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIT_ECOLI Q46864 Uncharacterized HTH-type transcriptional regulator ygiT (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.41, Method: Composition-based stats. Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 4/22 (18%) Frame = -1 Query: 96 VNAFS----RYEKGNAQPHPST 113 +N FS R+ PHP+T Sbjct: 4687 INTFSPQLVRHSLNTCSPHPNT 4622 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIV_ECOLI Q46866 Probable transcriptional regulator ygiV (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.34, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 14/27 (51%) Frame = -1 Query: 12 DFPSIPVAMLPHRCSPELLNYSVAKFI 38 +FP + +L H CS +S A F+ Sbjct: 4282 NFPFLFTKLLNHYCS-----FSFAYFL 4217 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIW_ECOLI P0ADU5 Protein ygiW (Precursor) (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGIZ_ECOLI Q46867 Inner membrane protein ygiZ (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJH_ECOLI P42589 tRNA-binding protein ygjH (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJI_ECOLI P42590 Inner membrane transporter ygjI (477 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.55, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +2 Query: 84 WAFITAYTYWFVNLF 98 W+ +T + W VN+F Sbjct: 1682 WSSVTIHQQWMVNVF 1726 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJJ_ECOLI P42591 Uncharacterized protein ygjJ (Precursor) (356 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJK_ECOLI P42592 Uncharacterized protein ygjK (Precursor) (783 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.6, Method: Composition-based stats. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -1 Query: 48 DHQRFNPFFDLGAWHGHLLP 67 DHQ PF + G+LLP Sbjct: 6988 DHQSLFPF*LIREQMGNLLP 6929 Score = 18.5 bits (36), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = +2 Query: 257 AQEVSKEQMQ 266 AQE+SKE+ Q Sbjct: 4076 AQEISKEEAQ 4105 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJM_ECOLI P67701 Uncharacterized HTH-type transcriptional regulator ygjM (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJN_ECOLI P64578 Uncharacterized protein ygjN (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.62 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.62, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -1 Query: 50 NFKYLDKH 57 NFK DKH Sbjct: 4966 NFKMFDKH 4943 Score = 16.2 bits (30), Expect = 2.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 12 AAEKYPQH 19 AAE+ P+H Sbjct: 3258 AAERIPRH 3235 Score = 15.4 bits (28), Expect = 4.8, Method: Composition-based stats. Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 10/33 (30%) Frame = -1 Query: 53 YLDKHYVFNV----------GGNELRVVAMVFF 75 Y K+Y FN+ GGN RV+ +FF Sbjct: 4186 YAVKNYRFNLVFNISRDFRFGGNR-RVLLSLFF 4091 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJP_ECOLI P42597 Uncharacterized protein ygjP (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.81 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.81, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 1/21 (4%) Frame = +1 Query: 92 GGKLKA-KVEIRVATVFRNAP 111 GGK K+ ++EIR + N P Sbjct: 5608 GGKSKSVQIEIRRKRTYINTP 5670 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = -3 Query: 144 PQYHQLEFDTRLWL 157 P+Y+ F +WL Sbjct: 1634 PRYNSANFCISIWL 1593 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJQ_ECOLI P42598 Uncharacterized protein ygjQ (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJR_ECOLI P42599 Uncharacterized oxidoreductase ygjR (1.-.-.-) (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.40, Method: Compositional matrix adjust. Identities = 17/51 (33%), Positives = 19/51 (37%), Gaps = 8/51 (15%) Frame = +2 Query: 107 IACARENQVVLFEAFKTACLPNFHLLRQALPKVG--------KLRKVFFNY 149 IAC VLF F A + R PKV RK+FF Y Sbjct: 3023 IACFWMMINVLFATFSDAGWSSLVARRAHNPKVAGSNPAHATTSRKIFFKY 3175 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +3 Query: 67 VYIASPNSLHFSQTQL 82 Y+A+ N+ HF ++L Sbjct: 5559 TYVATENTEHFKCSEL 5606 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YGJV_ECOLI P42603 Inner membrane protein ygjV (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +1 Query: 105 VSTWALFCCKGLTMRC 120 ++ W L C +T RC Sbjct: 667 ITAWNLRYCASITARC 714 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -1 Query: 167 IDPFKVEKTPSA 178 +DP + K PSA Sbjct: 3271 LDPIRR*KNPSA 3236 Score = 16.9 bits (32), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = -3 Query: 148 FLLMNGLNIIRFWR 161 FLL ++ + WR Sbjct: 1277 FLLTQAADVAKRWR 1236 Score = 15.4 bits (28), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 10/11 (90%) Frame = +3 Query: 34 LSVYSAVIGVH 44 +++ +AVIG+H Sbjct: 1332 IALSTAVIGMH 1364 Score = 15.4 bits (28), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +2 Query: 105 VSTWALFCCK 114 +S W L C K Sbjct: 2129 ISNWNLACLK 2158 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAB_ECOLI P11865 Uncharacterized protein yhaB (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.2, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 8/12 (66%) Frame = -1 Query: 57 RRVLSAITALNF 68 R VLS ALNF Sbjct: 124 RWVLSC*AALNF 89 Score = 15.8 bits (29), Expect = 6.1, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -3 Query: 6 IAHIFHPS 13 +AH+ HP+ Sbjct: 1376 LAHLMHPN 1353 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAC_ECOLI P11864 Uncharacterized protein yhaC (ORF B') (ORFX) (395 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.046 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.046, Method: Compositional matrix adjust. Identities = 18/61 (29%), Positives = 27/61 (44%) Frame = -2 Query: 59 GGKCIITGDFQKELAYLQNVILYNVSSLRLDFLGYNAQIIQRSDNTCELTINEPLKNQEI 118 GGK I GDF + A Q I N +S+ F Y +I + + ++ P K + Sbjct: 2190 GGKLITQGDFIFKQAKFQFEIH*NQTSIVKQFTEYIINLITQLFHLRQMRFTSPAKGFTV 2011 Query: 119 S 119 S Sbjct: 2010 S 2008 Score = 20.4 bits (41), Expect = 0.68, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 12/16 (75%) Frame = +3 Query: 31 NLEALAPGIEKLKQTS 46 NLE +PG+E+L T+ Sbjct: 3579 NLEVSSPGLERLLFTA 3626 Score = 17.3 bits (33), Expect = 6.1, Method: Compositional matrix adjust. Identities = 13/43 (30%), Positives = 23/43 (53%), Gaps = 1/43 (2%) Frame = -2 Query: 53 LNTLQPGGKCIITGDFQKELAYLQNVILYNVSSLRLD-FLGYN 94 LNTL CI+T + + +V +++S+++L FL N Sbjct: 1728 LNTLTIHC*CIVTELQHQIIRIFSSVDSFSLSAIQLG*FLHLN 1600 Score = 16.9 bits (32), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +3 Query: 374 NSEKQYFTREDYTY 387 N+ +FT D+TY Sbjct: 2526 NAASIFFTDFDWTY 2567 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAH_ECOLI P64590 Inner membrane protein yhaH (121 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 38 GLLDKMLGWQRA 49 GLL K + WQ+ Sbjct: 5954 GLLKKRVKWQQK 5989 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAI_ECOLI P64592 Inner membrane protein yhaI (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAJ_ECOLI P67660 Uncharacterized HTH-type transcriptional regulator yhaJ (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAK_ECOLI P42624 Pirin-like protein yhaK (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.8, Method: Composition-based stats. Identities = 7/9 (77%), Positives = 8/9 (88%), Gaps = 1/9 (11%) Frame = -1 Query: 23 TFSFGH-YF 30 TFS+GH YF Sbjct: 1300 TFSYGHPYF 1274 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 25 SFGHYFDP 32 +FGH F+P Sbjct: 732 TFGHQFNP 755 Score = 16.9 bits (32), Expect = 3.9, Method: Composition-based stats. Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 4/25 (16%) Frame = -1 Query: 183 LQSIHGKFHALTHHE----EKAALT 203 LQS+ +FH + + +K ALT Sbjct: 2383 LQSVQAQFHLKSFYSLIRCQKRALT 2309 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAL_ECOLI P42625 Uncharacterized protein yhaL (54 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 9.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 12.7 bits (21), Expect = 9.9, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -3 Query: 18 KEPARTAKNFGYE 30 +EP + GYE Sbjct: 3143 REPDLNQRPSGYE 3105 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAM_ECOLI P42626 UPF0597 protein yhaM (436 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 10/11 (90%) Frame = -1 Query: 310 IYIHNQLPRLS 320 +++H +LPRL+ Sbjct: 3850 LFVHPKLPRLN 3818 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAO_ECOLI P42628 Inner membrane transport protein yhaO (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 15/19 (78%), Gaps = 1/19 (5%) Frame = -3 Query: 268 GILFVTVFFYAV-SFTLAM 285 G+LFV+ F+A+ SF L++ Sbjct: 5825 GLLFVSAIFFALASFALSL 5769 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 15/32 (46%) Frame = -3 Query: 349 NILRRKMPAEKINENLVQRGIMIFAILLAWSA 380 ++LRR A ++ L+ FA L W A Sbjct: 6896 SVLRRSGSAFGLSILLITTTTGTFAALACWMA 6801 Score = 16.5 bits (31), Expect = 10.0, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 17/36 (47%) Frame = +2 Query: 350 ILRRKMPAEKINENLVQRGIMIFAILLAWSAIVLNA 385 ILR K I E L ++ I+ WS++ ++ Sbjct: 1598 ILRCKN*PSCIAERLKLSTLLKILIIWCWSSVTIHQ 1705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHAV_ECOLI P64594 Uncharacterized protein yhaV (154 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBE_ECOLI P0AA73 Uncharacterized inner membrane transporter yhbE (321 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +2 Query: 214 LSHWQLACL 222 +S+W LACL Sbjct: 2129 ISNWNLACL 2155 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -3 Query: 192 FLLYTLCTIALFP 204 FL ++CT LFP Sbjct: 5648 FLRISICTDLLFP 5610 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 11/18 (61%) Frame = +2 Query: 210 VIAQLSHWQLACLIFCGL 227 +++QLS W+L + L Sbjct: 4850 LVSQLSGWELNVMTINEL 4903 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBJ_ECOLI P0A894 UPF0042 nucleotide-binding protein yhbJ (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBO_ECOLI P45470 Protein yhbO (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBP_ECOLI P67762 UPF0306 protein yhbP (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.12, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 13/21 (61%) Frame = +2 Query: 110 MLSAPVWEIRLDEIKFTDNTL 130 M APV ++ ++KF +N L Sbjct: 5594 MFRAPVEKVNRYKLKFVENEL 5656 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBQ_ECOLI P45472 UPF0213 protein yhbQ (100 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBS_ECOLI P63417 Uncharacterized N-acetyltransferase yhbS (2.3.1.-) (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.28, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 14/29 (48%) Frame = +1 Query: 106 AAVVTLGDPALYSRFGFELAAHHDLRCRW 134 A +T +PA+ + + A RCRW Sbjct: 637 AQCITGDNPAITA-WNLRYCASITARCRW 720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBT_ECOLI P64599 Uncharacterized protein yhbT (174 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 37 LSWQFRQA 44 LSWQFR+ Sbjct: 2244 LSWQFRRC 2267 Score = 15.8 bits (29), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 70 FTSVVNGKLV 79 FTS +NG + Sbjct: 366 FTSPLNGNWI 337 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBU_ECOLI P45527 Uncharacterized protease yhbU (3.4.-.-) (Precursor) (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.51, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%) Frame = -2 Query: 290 QAIDRCKADPQNFVPQSAWMETLGSM 315 +I RC + V SAW +L S+ Sbjct: 4971 SSISRCSINISIAVRVSAWHFSLSSL 4894 Score = 16.9 bits (32), Expect = 6.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = -1 Query: 229 PTLCKGRYLVDGERYHAL 246 P K RYL+ HAL Sbjct: 6769 PQQPKPRYLLPEHLVHAL 6716 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBV_ECOLI P45475 Uncharacterized protein yhbV (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 13/26 (50%) Frame = +2 Query: 16 TLEEFYQQAATSSADVIYLGEAVCSK 41 TLE+ +Q + AD+ L + K Sbjct: 5234 TLEDLAEQGVSDLADIEELDDEKAGK 5311 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 17/29 (58%), Gaps = 1/29 (3%) Frame = +1 Query: 224 SGYVYNLGNELASMQGLVDVV-RLSPQGT 251 +GY+ + N+ + + + DVV RL + T Sbjct: 493 NGYITKISNDKDNKRFVADVVSRLFDRTT 579 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 8/47 (17%) Frame = +2 Query: 113 GHALNCYN-------AVTLKILLKQGMMRWCMP-VELSRDWLVNLLN 151 G L C N + L LLK ++ WC V + + W+VN+ Sbjct: 1592 GAILRCKN*PSCIAERLKLSTLLKI-LIIWCWSSVTIHQQWMVNVFK 1729 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 12 WPKETLEE 19 W K+TLE+ Sbjct: 2206 WDKKTLEK 2229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBW_ECOLI P0ADV5 Uncharacterized protein yhbW (335 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.51, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 16/34 (47%) Frame = -1 Query: 123 ALRRHMSGDIDNFPRDVAELVDWFDARDPNPHVR 156 ALR +S + +FP V ++ A H+R Sbjct: 3793 ALRILLSANTSSFPSTVTMIISPSTALMIPCHLR 3692 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -1 Query: 250 RRGETGQLPPPIQNMD 265 RRG Q+ PP+ D Sbjct: 6538 RRGRVKQIHPPLPYRD 6491 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBX_ECOLI P42640 Putative phosphoethanolamine transferase yhbX (2.7.-.-) (541 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = -1 Query: 440 GREASQQAYHVPMFI 454 G Y+VP+F+ Sbjct: 2494 GHHIKNALYYVPLFL 2450 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHBY_ECOLI P0AGK4 RNA-binding protein yhbY (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.2, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -3 Query: 85 YRPTKERKISLPR 97 Y P + S+PR Sbjct: 3110 YEPDELPSCSIPR 3072 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCA_ECOLI P28722 Uncharacterized fimbrial chaperone yhcA (Precursor) (224 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.52, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 16/27 (59%) Frame = -3 Query: 149 KNGDQIEISNPSNYVVRMTLQFKTLPS 175 + ++EIS SN++V + F LP+ Sbjct: 5441 RRSTEVEISAASNFMVTSVMLF--LPA 5367 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 64 KSIRLIPTQPVIR 76 K + +IP + VIR Sbjct: 1849 KRLEMIPIECVIR 1887 Score = 16.2 bits (30), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 47 DHPSLLY 53 DHP L+Y Sbjct: 1717 DHPLLMY 1697 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 122 IRQDLPV 128 +RQDLP Sbjct: 5255 VRQDLPA 5235 Score = 15.8 bits (29), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -2 Query: 129 LIHPAS 134 L+HPAS Sbjct: 3087 LLHPAS 3070 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCB_ECOLI P0ADW3 Putative cytochrome d ubiquinol oxidase subunit 3 (1.10.3.-) (Cytochrome bd-I oxidase subunit III) (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCC_ECOLI P0ADW6 Uncharacterized protein yhcC (309 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.45, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 14/32 (43%) Frame = -2 Query: 150 HDKTLHRINRGHDFACYQRTTQLARQRGLKVC 181 HD + R N+ HD C + +R + C Sbjct: 6786 HDPIIGRNNQNHDICCLSTSCTH*CKRSMPWC 6691 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 14/27 (51%) Frame = +1 Query: 276 CENRWTGMVELDRYLNEHGVQGSALGR 302 C M+E++ + EH + G +GR Sbjct: 2425 CLQSSLAMLEIEAHNKEHFLCGDPIGR 2505 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 7/9 (77%) Frame = +1 Query: 226 KAWEAGRLN 234 K EAGRLN Sbjct: 268 KFTEAGRLN 294 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 188 LPGEGQAEC 196 LPGE +A C Sbjct: 3527 LPGECRARC 3553 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCD_ECOLI P45420 Uncharacterized outer membrane usher protein yhcD (Precursor) (793 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCE_ECOLI P45421 Putative uncharacterized protein yhcE (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCF_ECOLI P45422 Uncharacterized protein yhcF (Precursor) (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.047 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.047, Method: Compositional matrix adjust. Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 2/40 (5%) Frame = -1 Query: 12 AFFAMSAQAADRV--SIDVKVTLEAAACTPILSNGGVVNF 49 F+A+ Q R+ S + L+ + P+L +GG +F Sbjct: 5980 PFYALLQQPVSRLLLSYGALLVLQNVSVQPLLPHGGSCHF 5861 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCG_ECOLI P45423 Uncharacterized protein yhcG (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.3, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 12/25 (48%) Frame = +3 Query: 299 NMYLNYAKEHWTLPDENPPIGLVLC 323 N ++ K+ W L I +VLC Sbjct: 1023 NHWVYNNKKKWLLRISRYNITIVLC 1097 Score = 16.5 bits (31), Expect = 9.5, Method: Compositional matrix adjust. Identities = 14/59 (23%), Positives = 22/59 (37%) Frame = +2 Query: 77 RYKRGFSAKNLRQMRLFYLFFQHVEIHQTMSGELTPLGIPQTPSAEFPSAKIWQTLSAK 135 RYK F L +RL ++ Q+ L+ L Q K+ + L+ K Sbjct: 5624 RYKLKFVENELTSIRLMPS*RTQKKLKQSRQSRLSRLRKSQLKQKSRQKVKVQRKLTRK 5800 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCH_ECOLI P45424 Uncharacterized protein yhcH (154 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCM_ECOLI P64612 Uncharacterized protein yhcM (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.5, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 2/36 (5%) Frame = -3 Query: 273 VSFTTLCVDARSQHDYIALS--RLFHTVMLFDVPVM 306 V C+ +H + L+ R FH VM PVM Sbjct: 752 VELVAECLTVCQRHLAVILAQYRKFHAVMAGLSPVM 645 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCN_ECOLI P64614 Uncharacterized protein yhcN (Precursor) (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 7.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 7.5, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 45 VASSPM 50 VASSP+ Sbjct: 164 VASSPL 147 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHCO_ECOLI P64616 Uncharacterized protein yhcO (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.17 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.17, Method: Composition-based stats. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +2 Query: 54 EFVHLGEKTRR 64 EFVH+G K R Sbjct: 3359 EFVHVGTKINR 3391 Score = 18.9 bits (37), Expect = 0.32, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 57 HLGEKTRRRF 66 H+G K RR+F Sbjct: 5116 HIGSKKRRKF 5145 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDA_ECOLI P13518 Uncharacterized protein yhdA (646 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDE_ECOLI P25536 Maf-like protein yhdE (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDH_ECOLI P26646 Putative quinone oxidoreductase yhdH (1.6.5.-) (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 5/40 (12%) Frame = -3 Query: 33 DVHWSSLNYKDALAITGKGKI-----IRNFPMIPGIDFAG 67 D H+S + D L +T I +FP I I F+G Sbjct: 3740 DDHFSIDSLDDTLPLTTVLHCYT*R*IDSFPQIVSIIFSG 3621 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDJ_ECOLI P28638 Uncharacterized adenine-specific methylase yhdJ (2.1.1.72) (294 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 10/10 (100%) Frame = -2 Query: 251 MGLRRLDVAS 260 +G+RR+DV+S Sbjct: 5679 LGIRRIDVSS 5650 Score = 16.2 bits (30), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/16 (31%), Positives = 9/16 (56%) Frame = -3 Query: 177 GNVWDFPRVRYLMDEY 192 ++W F + Y D+Y Sbjct: 866 ASLW*FVTIMYRFDDY 819 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDL_ECOLI P36675 Uncharacterized protein yhdL (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 7/15 (46%) Frame = +3 Query: 49 GNWEASGKKVNHFFT 63 G W KK HF T Sbjct: 6198 GCWP*KQKKAKHFTT 6242 Score = 14.6 bits (26), Expect = 4.5, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -3 Query: 20 LHDPLFRQRVEK 31 L +PL RVE+ Sbjct: 2666 LPEPLDPNRVEE 2631 Score = 14.2 bits (25), Expect = 6.3, Method: Composition-based stats. Identities = 7/19 (36%), Positives = 11/19 (57%) Frame = +2 Query: 43 GKHGNRGNWEASGKKVNHF 61 GK+G + A +KVN + Sbjct: 5573 GKYGAL*MFRAPVEKVNRY 5629 Score = 13.9 bits (24), Expect = 6.7, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +2 Query: 24 LFRQRVEKNKKGK 36 +FR VEK + K Sbjct: 5594 MFRAPVEKVNRYK 5632 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDN_ECOLI P36677 Uncharacterized protein yhdN (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.8, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +3 Query: 44 RAGYRLLKNAGCL 56 R GY +GCL Sbjct: 2595 RCGYGRFIWSGCL 2633 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDP_ECOLI P46474 Uncharacterized protein yhdP (Precursor) (1266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.83 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.83, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -2 Query: 171 TWLNDPRRHRAEG 183 TW N P RH+ +G Sbjct: 3372 TWTNSPPRHKKKG 3334 Score = 20.8 bits (42), Expect = 1.8, Method: Composition-based stats. Identities = 10/16 (62%), Positives = 12/16 (75%) Frame = -3 Query: 636 GPYFDETPLKDSLGAT 651 GPY +PLK+SLG T Sbjct: 3269 GPY---SPLKESLGMT 3231 Score = 18.9 bits (37), Expect = 5.8, Method: Compositional matrix adjust. Identities = 16/64 (25%), Positives = 27/64 (42%) Frame = +2 Query: 927 SQPTANGTLVEAQGREINATLAMRNNAPWLANIKYLYYNPSVAKTRGDSTPSSPFPTTER 986 S+P + IN A ++A W + + +NP VA S P+ T+ + Sbjct: 2996 SRPRYQFIEIACFWMMINVLFATFSDAGWSSLVARRAHNPKVA----GSNPAHA-TTSRK 3160 Query: 987 INFR 990 I F+ Sbjct: 3161 IFFK 3172 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDT_ECOLI P45566 Uncharacterized protein yhdT (80 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.85, Method: Composition-based stats. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 68 IYRDIPLEDDD 78 I+RD L DDD Sbjct: 3013 IHRDSLLLDDD 3045 Score = 15.4 bits (28), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -3 Query: 41 GFPRWFEMACILTPLLF 57 GF ++ AC PLL+ Sbjct: 4139 GFQIRWK*ACFAEPLLY 4089 Score = 15.0 bits (27), Expect = 3.7, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 5/10 (50%) Frame = -1 Query: 36 APGFTGFPRW 45 AP F P W Sbjct: 244 APSFHLLPHW 215 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDU_ECOLI P64619 Uncharacterized protein yhdU (59 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDV_ECOLI P64622 Uncharacterized protein yhdV (73 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -2 Query: 43 TTQDNWET 50 TTQDN+ T Sbjct: 6459 TTQDNFMT 6436 Score = 13.9 bits (24), Expect = 8.6, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -2 Query: 4 LIPVALL 10 +IP ALL Sbjct: 4356 IIPSALL 4336 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDW_ECOLI P45766 Putative amino-acid ABC transporter-binding protein yhdW (Precursor) (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDX_ECOLI P45767 Putative amino-acid ABC transporter permease protein yhdX (393 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 10/24 (41%), Positives = 12/24 (50%) Frame = +1 Query: 284 IQAVPYGQHEAARSLGLPNPVTLR 307 I+A P A + LGL TLR Sbjct: 328 IEANPIAVKWACKRLGLITAETLR 399 Score = 17.3 bits (33), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -2 Query: 89 LNTLLVSALCIV 100 LNTL + CIV Sbjct: 1728 LNTLTIHC*CIV 1693 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDY_ECOLI P45768 Inner membrane amino-acid ABC transporter permease protein yhdY (367 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.27, Method: Compositional matrix adjust. Identities = 14/36 (38%), Positives = 20/36 (55%) Frame = -3 Query: 2 TKVLLSHPPRPASHNSSRAMVWVRKNLFSSWSNSLL 37 + V LSH +P+ NSS ++ LFS+ NS L Sbjct: 2225 SNVFLSHKRQPSGENSSPKVI-----LFSNKPNSSL 2133 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 89 YGLYPHDQRW 98 + L+P D+RW Sbjct: 911 FDLHPDDRRW 882 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = +3 Query: 116 WKILPHR 122 WKILP+R Sbjct: 5238 WKILPNR 5258 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = +2 Query: 36 LLTIGCIWLM 45 + I C W+M Sbjct: 3014 FIEIACFWMM 3043 Score = 16.9 bits (32), Expect = 7.5, Method: Compositional matrix adjust. Identities = 12/39 (30%), Positives = 19/39 (48%) Frame = -2 Query: 205 VPLITVLFMSSVMLPLFMAEGTSIDKLIRALVGVILFQS 243 + LIT LF M A+G ++ +V +I+FQ Sbjct: 2082 INLITQLFHLRQMRFTSPAKGFTVSLTDNGIVQLIIFQK 1966 Score = 16.5 bits (31), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = -2 Query: 307 IIIGLFDLF 315 ++IG FDLF Sbjct: 6045 MVIGQFDLF 6019 Score = 16.5 bits (31), Expect = 8.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 8/10 (80%) Frame = +2 Query: 44 LMWELIPPLL 53 ++W+ +PP L Sbjct: 1241 IVWQRLPPAL 1270 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHDZ_ECOLI P45769 Uncharacterized amino-acid ABC transporter ATP-binding protein yhdZ (252 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.5, Method: Compositional matrix adjust. Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 6/30 (20%) Frame = -1 Query: 39 ERIVL----CGPSGSGK--STTIRCINHLE 62 +RI+L C P G+ +TT+ I HL+ Sbjct: 1495 QRIILLLI*CMPFRIGELHATTVAKITHLQ 1406 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHEO_ECOLI P64624 Uncharacterized protein yheO (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +2 Query: 221 HTVYLY 226 HT YLY Sbjct: 3464 HTAYLY 3481 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHES_ECOLI P63389 Uncharacterized ABC transporter ATP-binding protein yheS (637 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 3.6, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 16/29 (55%), Gaps = 3/29 (10%) Frame = +1 Query: 192 LKSYQGTLILISHDRD---FLDPIVDKII 217 L Y G + IS+D+D F+ +V ++ Sbjct: 481 LGKYNGYITKISNDKDNKRFVADVVSRLF 567 Score = 17.7 bits (34), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 9/11 (81%) Frame = -2 Query: 393 SPIQHLARLAP 403 S +QHLAR +P Sbjct: 3564 SALQHLARHSP 3532 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHET_ECOLI P45524 Putative esterase yheT (3.1.1.-) (340 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.039 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.039, Method: Compositional matrix adjust. Identities = 8/35 (22%), Positives = 16/35 (45%) Frame = +2 Query: 41 VKFTPYWQRLELPDGDFVDLAWSENPAQAQHKPRL 75 ++ +W + + F D WS A+ H P++ Sbjct: 3017 IEIACFWMMINVLFATFSDAGWSSLVARRAHNPKV 3121 Score = 20.0 bits (40), Expect = 0.76, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%), Gaps = 1/15 (6%) Frame = +2 Query: 55 GDFVDLA-WSENPAQ 68 G+ +D+ W +NPAQ Sbjct: 4673 GERIDIVLWDDNPAQ 4717 Score = 19.6 bits (39), Expect = 0.90, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 12/23 (52%) Frame = +2 Query: 118 RMHRIYHSGETEDASWFLRWLQR 140 R+H+ H + SWF WL R Sbjct: 6707 RLHQCVHEVLRQQISWF--WLLR 6769 Score = 18.5 bits (36), Expect = 2.4, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 11/23 (47%) Frame = -2 Query: 258 QCSAMPMLNRIAKPTLIIHAKDD 280 +CS N I+ TLII D Sbjct: 579 RCSVEQAANNISHKTLIIFIITD 511 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHEU_ECOLI P67624 UPF0270 protein yheU (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.2, Method: Composition-based stats. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = +3 Query: 47 QCGEAVLVWS 56 +CG +WS Sbjct: 2595 RCGYGRFIWS 2624 Score = 15.4 bits (28), Expect = 2.5, Method: Compositional matrix adjust. Identities = 7/27 (25%), Positives = 12/27 (44%) Frame = +2 Query: 44 RQLQCGEAVLVWSELHETVNIMPRSQF 70 RQL+ + +L E +PR + Sbjct: 3827 RQLRMNKEILAVVEAVSNEKSLPREKI 3907 Score = 15.0 bits (27), Expect = 3.3, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +2 Query: 22 LREGTDYGEH 31 LR+G G H Sbjct: 6605 LRQGKQEGSH 6634 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHEV_ECOLI P0ADW8 Uncharacterized protein yheV (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFA_ECOLI P0ADX1 Protein yhfA (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 5.4, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 9/18 (50%) Frame = +3 Query: 65 DCEVKLTSERREEAPRLF 82 DC + L S A RLF Sbjct: 2376 DCRLSLVSTPF*IALRLF 2429 Score = 15.0 bits (27), Expect = 8.2, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = -3 Query: 52 VVSILQKGRQDVV 64 +VSI+ G+Q + Sbjct: 3644 IVSIIFSGKQQAL 3606 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFG_ECOLI P0ADX5 Uncharacterized protein yhfG (55 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.0, Method: Compositional matrix adjust. Identities = 12/34 (35%), Positives = 20/34 (58%) Frame = +2 Query: 2 KKLTDKQKSRLWELQRNRNFQASRRLEGVEMPLV 35 KKL ++SRL L++++ Q SR+ V+ L Sbjct: 5693 KKLKQSRQSRLSRLRKSQLKQKSRQKVKVQRKLT 5794 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFK_ECOLI P45537 Uncharacterized protein yhfK (700 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 4.4, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = -2 Query: 353 LLPALKSYLSLKSPALRNAG 372 +LP +S L P NAG Sbjct: 1320 MLPCCRSRLVTVIPIFANAG 1261 Score = 18.1 bits (35), Expect = 5.3, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = -1 Query: 498 CLIAFGGTVWLWPQWQSG 515 CL A VW +PQ Q G Sbjct: 1834 CLKAVVPFVWGYPQLQVG 1781 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFL_ECOLI P64627 Uncharacterized protein yhfL (55 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.5 bits (23), Expect = 7.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 9/20 (45%) Frame = -1 Query: 31 CSYDYLLHPAISISKIIGGC 50 CS+ L I+ I GC Sbjct: 5380 CSFLLQLLRIIAKPADIAGC 5321 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFS_ECOLI P45545 Uncharacterized protein yhfS (361 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFT_ECOLI P45546 Uncharacterized protein yhfT (434 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.37, Method: Compositional matrix adjust. Identities = 11/37 (29%), Positives = 16/37 (43%) Frame = -3 Query: 366 LMEVALLVGSIFAAIKMAGYTGFSIAVAIYFLNESLG 402 + + L+ S F+ K +GF L ESLG Sbjct: 3347 IKKKGLIAQSFFSNNKKPRNSGFDTTGPYSPLKESLG 3237 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFU_ECOLI P64631 Uncharacterized protein yhfU (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.6, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -1 Query: 26 FEVFIHND 33 F VF++ND Sbjct: 4780 FCVFVNND 4757 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFW_ECOLI P45549 Uncharacterized protein yhfW (408 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.64, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +2 Query: 256 IVNNPYGVSWQNL 268 IV PY + WQ L Sbjct: 1220 IVRAPYAIVWQRL 1258 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 4/24 (16%) Frame = +1 Query: 100 LRMPFRDVI----DRVEQALVSAG 119 LR+P + RVE AL SAG Sbjct: 394 LRLPMTSLTLVNQKRVEDALKSAG 465 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 3/53 (5%) Frame = +1 Query: 157 NLSVISFDDAIKIGRIVREQ---VQVGRVITFGGLLTDSQRILDAAESKEGRF 206 N ++S DDA I + + V + GG+ QR+ + ++ GR Sbjct: 133 NFILLSGDDATGFDFIQKGGQGIISVTANVAAGGMTELCQRVAEGKFTEAGRL 291 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 284 THPTAFICTNIQ 295 TH A ICT+I Sbjct: 3539 THLVANICTHIN 3504 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFX_ECOLI P45550 Uncharacterized protein yhfX (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFY_ECOLI P45551 Uncharacterized protein yhfY (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 12/23 (52%) Frame = -1 Query: 55 RSRRGEEIEPLDNELLAELAQSS 77 RSR G+E L +++ S+ Sbjct: 3610 RSRPGDETSKL*GQVIGSSTSST 3542 Score = 16.5 bits (31), Expect = 2.4, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +1 Query: 75 QSSHWQAVVQ 84 QSS W+ + Q Sbjct: 2755 QSSEWENLSQ 2784 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHFZ_ECOLI P45552 Uncharacterized protein yhfZ (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.46, Method: Compositional matrix adjust. Identities = 15/56 (26%), Positives = 26/56 (46%) Frame = +2 Query: 138 MAVVSRLAAESYLTQKGLCLALELGPHTYVGEHQLICRKGESANVKRVGLDNRSAD 193 +AVV ++ E L ++ + ALE+ T +K E RV +D ++ D Sbjct: 3854 LAVVEAVSNEKSLPREKIFEALEIALATATK------KKHEQEIEVRVNIDRKTGD 4003 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 288 HQQRVVSGEQ 297 HQQ V G+Q Sbjct: 5461 HQQTAV*GDQ 5432 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHGA_ECOLI P31667 Uncharacterized protein yhgA (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = +1 Query: 214 NYILQTGDAVRFNDFI 229 N+IL +GD DFI Sbjct: 133 NFILLSGDDATGFDFI 180 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +2 Query: 244 MTIAERLRQEGE 255 MT+ +R RQ+G Sbjct: 1283 MTVTKRDRQQGN 1318 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 5/9 (55%) Frame = +2 Query: 136 WLDCFADPK 144 W DCF K Sbjct: 1814 WNDCFQTTK 1840 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHGE_ECOLI P45804 Uncharacterized protein yhgE (574 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHGF_ECOLI P46837 Protein yhgF (773 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHGN_ECOLI P67143 UPF0056 inner membrane protein yhgN (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = -3 Query: 98 GLPAGEEPFI 107 G+PA FI Sbjct: 1805 GIPAASSRFI 1776 Score = 15.4 bits (28), Expect = 8.9, Method: Compositional matrix adjust. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = +1 Query: 129 HQYPN 133 H YPN Sbjct: 4183 HNYPN 4197 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHA_ECOLI P0ADX7 Uncharacterized protein yhhA (ORFQ) (Precursor) (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHH_ECOLI P28911 Uncharacterized protein yhhH (ORF-B2) (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 5.4, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +2 Query: 89 LTTSWV 94 LTT W+ Sbjct: 914 LTTDWI 931 Score = 15.0 bits (27), Expect = 7.5, Method: Composition-based stats. Identities = 10/28 (35%), Positives = 13/28 (46%) Frame = +3 Query: 10 KKILFRNCVIVSLFVFTYNTWAQCNNNI 37 +KIL N V +S T CN+ I Sbjct: 1371 RKILN*NPVAISCKWVILATVVACNSPI 1454 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHI_ECOLI P28912 H repeat-associated protein yhhI (ORF-H) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.27, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 16/29 (55%) Frame = +1 Query: 47 IEDFGETHLDFLKQYGDFENGIPVHDTIA 75 +D G +DF ++G FEN I + D + Sbjct: 2101 FDDAGLILVDFKLEFGLFENKITLGDEFS 2187 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 10/46 (21%) Frame = -2 Query: 74 IARVVSCISPAKFHECFINWMR--DCH-----SSDDK---DVIAID 109 I +V C FH CF N +R +CH S+ D+ D +A+D Sbjct: 6402 INNLVDCCHTT*FHHCF-NDLRAFNCHFIR*FSNGDRFTNDNVAVD 6268 Score = 18.5 bits (36), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = +2 Query: 81 ISPAKFHECF 90 +SP K+++CF Sbjct: 1799 VSPHKWNDCF 1828 Score = 16.9 bits (32), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +3 Query: 301 NHWHVENKLHWRLDV 315 NHW NK W L + Sbjct: 1023 NHWVYNNKKKWLLRI 1067 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHJ_ECOLI P0AGH1 Inner membrane transport permease yhhJ (375 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHK_ECOLI P37613 Uncharacterized protein yhhK (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.0, Method: Composition-based stats. Identities = 3/6 (50%), Positives = 6/6 (100%) Frame = +2 Query: 92 VSCWWM 97 ++C+WM Sbjct: 3023 IACFWM 3040 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHL_ECOLI P37614 Uncharacterized protein yhhL (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = -2 Query: 3 INIGRLLMLCVWGFLILNLV 22 INI + + W F + +L+ Sbjct: 4950 INISIAVRVSAWHFSLSSLI 4891 Score = 14.2 bits (25), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = -3 Query: 60 PQMTTAEKVRIF 71 P++ T + +RIF Sbjct: 5609 PELGTFKVLRIF 5574 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHM_ECOLI P37615 Uncharacterized protein yhhM (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHN_ECOLI P0ADI9 Uncharacterized membrane protein yhhN (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.25 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.25, Method: Composition-based stats. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -3 Query: 71 LPRQRLMYAIGAFFLSH 87 LPR+R + FLSH Sbjct: 2255 LPRKRSLSIFSNVFLSH 2205 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = -3 Query: 194 CYFAGHFLIVRSLY 207 CY+ G +L ++S+Y Sbjct: 1142 CYYCGFYLSLQSIY 1101 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHQ_ECOLI P37619 Inner membrane protein yhhQ (221 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 1 MNVFSQTQRYK 11 +NVFS RY+ Sbjct: 3226 INVFSNQNRYQ 3194 Score = 15.8 bits (29), Expect = 9.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +1 Query: 142 APTASTLFGN 151 A +STLFG+ Sbjct: 2623 AGASSTLFGS 2652 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHS_ECOLI P37621 UPF0226 protein yhhS (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 15/21 (71%) Frame = -3 Query: 243 LFYDAKGWDGAAFALTLFSCA 263 LF A + A+FAL+LF+C+ Sbjct: 5819 LFVSAIFFALASFALSLFACS 5757 Score = 17.3 bits (33), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 255 FALTLFSCA 263 F +T+FSC Sbjct: 1065 FEVTIFSCC 1039 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHT_ECOLI P0AGM0 UPF0118 inner membrane protein yhhT (349 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHW_ECOLI P46852 Protein yhhW (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.3, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +2 Query: 205 LAIWDEQAISIH 216 L IW +++IH Sbjct: 1667 LIIWCWSSVTIH 1702 Score = 15.8 bits (29), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 9/20 (45%), Gaps = 3/20 (15%) Frame = +1 Query: 11 GHANHG---WLDSWHTFSFA 27 GH +HG LD + A Sbjct: 6550 GHVDHGKTSLLDCIRSTKVA 6609 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHX_ECOLI P46853 Uncharacterized oxidoreductase yhhX (1.-.-.-) (345 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.0, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 15/32 (46%) Frame = +2 Query: 18 HLPYVLNRKDSWHVAHIFRRHAKPEEQAPIYS 49 +L V +K + H+F K E+ IYS Sbjct: 6899 YLSTVSCQKSGEEIPHLFTYQLKREQGLMIYS 6994 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +2 Query: 305 LYQTITHGAPNYVKE 319 LYQT + G Y+K+ Sbjct: 3272 LYQTPSFGVFCYLKK 3316 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHY_ECOLI P46854 Uncharacterized N-acetyltransferase yhhY (2.3.1.-) (162 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.7, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 10/23 (43%) Frame = +2 Query: 35 HPSDHMWQERLADRPGIKQLVAC 57 P+D + DR +L AC Sbjct: 5156 KPADDLLNLASLDRDMAFKLAAC 5224 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHHZ_ECOLI P46855 Uncharacterized protein yhhZ (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.35 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.35, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -1 Query: 54 GSQFHGITFCKLIDKSTP 71 G++ + FC +DK TP Sbjct: 3406 GAEIISVNFCSNVDKLTP 3353 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHID_ECOLI P0AFV2 Uncharacterized protein yhiD (215 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIH_ECOLI P37624 Uncharacterized ABC transporter ATP-binding protein yhiH (911 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHII_ECOLI P37626 Uncharacterized protein yhiI (Precursor) (355 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIJ_ECOLI P37627 Uncharacterized protein yhiJ (540 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIL_ECOLI P37629 Putative uncharacterized protein yhiL (535 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 14/28 (50%) Frame = +1 Query: 250 LKHEEMASSAYKHKNNKVLYDLLNTRDM 277 L EEM + N++ L++ RDM Sbjct: 6418 LVAEEMGHKVILRRENELEEALMSDRDM 6501 Score = 17.7 bits (34), Expect = 5.8, Method: Compositional matrix adjust. Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 2/43 (4%) Frame = +1 Query: 164 LSGNFKPDW--RWDVSKETFTKEKFDSYVKSVFSKIDFYKQCG 204 L F PD WD K+T K D + ++ I+ Y+Q Sbjct: 2170 LGDEFSPDGCRLWD--KKTLEKMDKDRFRGNLGGVIEAYEQVA 2292 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIM_ECOLI P37630 Inner membrane protein yhiM (364 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.8, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 11/25 (44%) Frame = +2 Query: 226 HQTRNTFSTKEHWLWCYWVIFLGSI 250 TR + +WL WVI L + Sbjct: 6383 QSTRLLIRKQRNWLLKKWVIKLSCV 6457 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIN_ECOLI P37631 Uncharacterized protein yhiN (400 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 14/24 (58%) Frame = -1 Query: 36 KKPGRKILMSGGGRCNFTNLYVEP 59 ++P ++L+S G N+ V+P Sbjct: 5962 QQPVSRLLLSYGALLVLQNVSVQP 5891 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 9/18 (50%) Frame = -3 Query: 36 KKPGRKILMSGGGRCNFT 53 +KP R + G NFT Sbjct: 2987 RKPNRALPPQGSVSTNFT 2934 Score = 16.9 bits (32), Expect = 7.3, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 343 GVDTNE 348 GVDTNE Sbjct: 2404 GVDTNE 2387 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIP_ECOLI P36837 Inner membrane transporter yhiP (489 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 12/18 (66%) Frame = +2 Query: 149 YMSINIGSLIALSLAPVI 166 Y+S+ + LI S APV+ Sbjct: 3566 YLSLQLRGLIPRS*APVV 3619 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIQ_ECOLI P68567 UPF0341 protein yhiQ (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.014 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.014, Method: Compositional matrix adjust. Identities = 10/32 (31%), Positives = 17/32 (53%) Frame = +3 Query: 2 KICLIDETGTGDGALSVLAARWGLEHDEDNLM 33 +IC + +T AL V R+ L+H+ N + Sbjct: 4365 RICCLVKTYALVTALEVFCMRYVLKHEVPNYL 4460 Score = 19.6 bits (39), Expect = 0.69, Method: Compositional matrix adjust. Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 1/36 (2%) Frame = +1 Query: 190 FQSLVGPDLDADGL-LEPARLLATKRVVVKRPDYAP 224 F + L+A G+ + RLL+ +VKR + P Sbjct: 1762 FNHFIMNRLEAAGIPTQMERLLSDNEALVKRLEMIP 1869 Score = 16.2 bits (30), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = -3 Query: 122 VAALLDDGLARGY 134 VA D+GL RG+ Sbjct: 992 VAH*SDNGLQRGH 954 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIR_ECOLI P37634 Uncharacterized protein yhiR (280 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 1/62 (1%) Frame = +2 Query: 31 EKDKPFLYLDTHAGAGRYQLG-SEHAERTGEYLEGIARIWQQDDLPAELEAYINVVKHFN 89 ++D PF AGRYQ+ + + ++ + Q+ + + +E ++H+N Sbjct: 947 DEDVPF--------AGRYQISVQQQGNQLALVVKSLGLQQQEKMVTSNIE-----IQHYN 1087 Query: 90 RS 91 R+ Sbjct: 1088RA 1093 Score = 16.5 bits (31), Expect = 7.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -1 Query: 158 RGLILIDP 165 RGLI +DP Sbjct: 3286 RGLIQLDP 3263 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHIS_ECOLI P37635 Putative uncharacterized protein yhiS (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.65 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.65, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 12/15 (80%) Frame = -1 Query: 221 QNLSGFVLTLSRFYF 235 Q +SGFV+T + F+F Sbjct: 5173 QVVSGFVITKTFFFF 5129 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/28 (28%), Positives = 16/28 (57%) Frame = -1 Query: 171 AEQRADLPTNIKDIQSLYQKMTKLYIEH 198 ++ R PT+ + S +K +K Y++H Sbjct: 3124 SDLRVMSPTSYQAAPSRVRKRSK*YVDH 3041 Score = 16.9 bits (32), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 9/11 (81%) Frame = -1 Query: 2 SIDFTPGIINT 12 S+D+ PGI +T Sbjct: 3469 SVDWRPGINST 3437 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJA_ECOLI P37197 Probable cytochrome c peroxidase (1.11.1.5) (465 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.28 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.28, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 11/25 (44%) Frame = -1 Query: 345 LFKDNKCATCHGGIILGGRSFEPLG 369 L N C G I +G F P+G Sbjct: 994 LLHTNLITACKGDIFIGSVPFYPIG 920 Score = 18.9 bits (37), Expect = 2.1, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 17/28 (60%) Frame = +2 Query: 368 LGLKKDFNFGEITAADIGRMNVTKEERD 395 L LKK+ +FG+ AD +N+ +RD Sbjct: 5120 LALKKEESFGDNKPAD-DLLNLASLDRD 5200 Score = 18.5 bits (36), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +1 Query: 61 YCHTPSAEL 69 Y +TP+AEL Sbjct: 5656 YINTPNAEL 5682 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 6/8 (75%) Frame = -3 Query: 18 CYLGLSGY 25 CYL SGY Sbjct: 2417 CYLKRSGY 2394 Score = 18.1 bits (35), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 11/14 (78%) Frame = -3 Query: 2 KMVSRITAIGLAGV 15 ++ + +TAIGLA + Sbjct: 368 RLQAHLTAIGLASI 327 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJB_ECOLI P37640 Putative HTH-type transcriptional regulator yhjB (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +3 Query: 61 CYWLLQKTVV 70 C W++ TVV Sbjct: 1407 CKWVILATVV 1436 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJC_ECOLI P37641 Uncharacterized HTH-type transcriptional regulator yhjC (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.64, Method: Compositional matrix adjust. Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 4/31 (12%) Frame = +1 Query: 207 SVNGVQWFKS----GGMLTVNSSENYLTAGL 233 +V G Q K+ GGM T+N + TA L Sbjct: 6328 AVKGSQVIKTMMKLGGMATINQVIDQETAQL 6420 Score = 16.9 bits (32), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 212 QWFKSG 217 +WFKSG Sbjct: 3121 RWFKSG 3138 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJD_ECOLI P37642 Inner membrane protein yhjD (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -3 Query: 135 TTVGLVGLAVALYSGI 150 T +GL + +L SGI Sbjct: 350 TAIGLASINNSLCSGI 303 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -1 Query: 147 YSGINWMGNL 156 Y G+NW N+ Sbjct: 760 YQGLNWWPNV 731 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJE_ECOLI P37643 Inner membrane metabolite transport protein yhjE (440 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.44, Method: Compositional matrix adjust. Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 5/23 (21%) Frame = +2 Query: 4 TATTLDHEQ-----EYTPINSRN 21 T T D +Q Y+PINSR+ Sbjct: 1286 TVTKRDRQQGNIAVTYSPINSRD 1354 Score = 20.0 bits (40), Expect = 0.90, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 8/11 (72%) Frame = +2 Query: 3 ATATTLDHEQE 13 ATAT HEQE Sbjct: 3932 ATATKKKHEQE 3964 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJG_ECOLI P37645 Uncharacterized protein yhjG (691 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJH_ECOLI P37646 Uncharacterized protein yhjH (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.6, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = -2 Query: 244 PIETLNT 250 PIE LNT Sbjct: 1740 PIEGLNT 1720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJJ_ECOLI P37648 Protein yhjJ (Precursor) (498 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJK_ECOLI P37649 Protein yhjK (651 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 5.9, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = +1 Query: 606 QMIAEGVETEAQR 618 Q +AEG TEA R Sbjct: 250 QRVAEGKFTEAGR 288 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJQ_ECOLI P37655 Putative uncharacterized protein yhjQ (250 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.4, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 12/19 (63%), Gaps = 2/19 (10%) Frame = -1 Query: 37 DACPDNL--LRLSFNVDFT 53 + CP + L +SFN DF+ Sbjct: 4627 NTCPYRIDTLVVSFNCDFS 4571 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJR_ECOLI P0ADJ3 Uncharacterized protein yhjR (62 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.5, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 6 PDTLPDPAIGY 16 PDT + IG+ Sbjct: 2304 PDTFSNLLIGF 2272 Score = 14.6 bits (26), Expect = 3.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -2 Query: 2 NNNEPDTLPDPAI 14 N PD L DP+ Sbjct: 6657 NVISPDMLCDPSC 6619 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJS_ECOLI P37657 Uncharacterized protein yhjS (523 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.88 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.88, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 15/28 (53%) Frame = +1 Query: 465 DQISAELVQMRLLAPEQWGMPLPLTQSS 492 +++ EL Q +L PE+WG P S Sbjct: 6880 ERLRTELSQHGIL-PEEWGGDSPFVHVS 6960 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJT_ECOLI P0ADJ5 Uncharacterized protein yhjT (63 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 3.4, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 8/18 (44%) Frame = -1 Query: 29 LRRIRDTLRLFFAKPRYV 46 LRR R KPRY Sbjct: 6688 LRRSPSRFRFQRDKPRYA 6635 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJU_ECOLI P37659 Uncharacterized protein yhjU (559 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.89, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 14/31 (45%) Frame = -3 Query: 526 QTAPVSENSNAVVIQYQDKPYVRLNGGDWVP 556 + P ENS+ VI + +KP L P Sbjct: 2204 KRQPSGENSSPKVILFSNKPNSSLKSTRIKP 2112 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJV_ECOLI P37660 Inner membrane transport protein yhjV (423 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.2, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 13/23 (56%) Frame = +1 Query: 281 SALALAAQVIPGHIIHITSTVLN 303 SAL I GH+ H +++L+ Sbjct: 6517 SALRAPVVTIMGHVDHGKTSLLD 6585 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJX_ECOLI P37662 Inner membrane protein yhjX (402 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 10/13 (76%) Frame = +1 Query: 126 VKWFPERKGLISA 138 VKW +R GLI+A Sbjct: 349 VKWACKRLGLITA 387 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +3 Query: 10 RWLTLIG 16 RWL+L+G Sbjct: 2190 RWLSLVG 2210 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YHJY_ECOLI P37663 Uncharacterized protein yhjY (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAA_ECOLI P0ADJ8 Inner membrane protein yiaA (145 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.97 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.97, Method: Compositional matrix adjust. Identities = 11/26 (42%), Positives = 12/26 (46%), Gaps = 3/26 (11%) Frame = +3 Query: 42 GYYFAVLVLGL---FSAASYQKTVRD 64 Y AV VL FSA YQK + Sbjct: 4452 NYLLAVHVLKC*LNFSALKYQKLTKS 4529 Score = 16.5 bits (31), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = +1 Query: 127 DAGINPPKETQVTQEEY 143 DAG+ + + VTQ+E Sbjct: 5458 DAGLKKSETSSVTQQEK 5508 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAB_ECOLI P11286 Inner membrane protein yiaB (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.78, Method: Compositional matrix adjust. Identities = 6/25 (24%), Positives = 15/25 (60%) Frame = -3 Query: 74 TIGLLFIGVLNAPINTYEMVIYPIA 98 TIGLLF+ + + ++ + ++ + Sbjct: 5831 TIGLLFVSAIFFALASFALSLFACS 5757 Score = 15.8 bits (29), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +2 Query: 41 MTATFGNYAYLR 52 T +FG + YL+ Sbjct: 3278 QTPSFGVFCYLK 3313 Score = 15.4 bits (28), Expect = 5.4, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -1 Query: 93 VIYPIAFFVCLFGQM 107 V+ +AFF C +GQ Sbjct: 6241 VVKCLAFF-CFYGQQ 6200 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAC_ECOLI P37664 Uncharacterized N-acetyltransferase yiaC (2.3.1.-) (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 93 VQQRHPHLMLEVYQK 107 V QRH ++L Y+K Sbjct: 725 VCQRHLAVILAQYRK 681 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAD_ECOLI P37665 Inner membrane lipoprotein yiaD (Precursor) (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAF_ECOLI P0ADK0 Uncharacterized protein yiaF (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +2 Query: 42 QNTVMRSGERLPTLTADQKK 61 QNT + + +PT DQ K Sbjct: 4106 QNTPISTESEIPTYIEDQIK 4165 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAG_ECOLI P0A9V5 Uncharacterized HTH-type transcriptional regulator yiaG (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.0, Method: Compositional matrix adjust. Identities = 14/41 (34%), Positives = 19/41 (46%) Frame = +2 Query: 34 SCTEIEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPS 74 SC E+L+ T LKI SV + ++W KPS Sbjct: 1622 SCIA-ERLKLSTLLKI--LIIWCWSSVTIHQQWMVNVFKPS 1735 Score = 15.8 bits (29), Expect = 3.0, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 42 RKGTGLKIDDF 52 +KGTG IDD Sbjct: 6964 KKGTG--IDDL 6990 Score = 13.9 bits (24), Expect = 9.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -1 Query: 17 IVFKDETQKIT 27 I+F +KIT Sbjct: 1582 IIFDSRLKKIT 1550 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAH_ECOLI P37669 Inner membrane protein yiaH (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAJ_ECOLI P37671 HTH-type transcriptional regulator yiaJ (YiaKLMNOPQRS operon repressor) (YiaK-S operon repressor) (282 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.92, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 8/8 (100%) Frame = +2 Query: 264 QAISNELG 271 QA+SNELG Sbjct: 4649 QAVSNELG 4672 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +1 Query: 260 RETAQAISNELGFTV 274 +ETAQ ++ E+G V Sbjct: 6403 QETAQLVAEEMGHKV 6447 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -1 Query: 33 IEILSNYPNGCP 44 + S +PN CP Sbjct: 4651 LNTCSPHPNTCP 4616 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAL_ECOLI P37673 Protein yiaL (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.8, Method: Compositional matrix adjust. Identities = 15/70 (21%), Positives = 31/70 (44%), Gaps = 11/70 (15%) Frame = +2 Query: 45 IYTQIIDLTTREAVVNRPEVHRRYIDIQFLAWGEEKI-----------GIAIDTGNNKVS 93 ++ +I T ++ +V + R + I+ E KI I +D GNN + Sbjct: 4172 VFDRITTQTAKQVIVQKVREAERAVVIEQFREQEGKIVTATVKKVSRESIILDLGNN--A 4345 Query: 94 ESLLEQRNII 103 E ++ Q +++ Sbjct: 4346 EGIIGQEDML 4375 Score = 16.2 bits (30), Expect = 4.3, Method: Composition-based stats. Identities = 4/11 (36%), Positives = 7/11 (63%) Frame = +2 Query: 67 RYIDIQFLAWG 77 RY+++ L W Sbjct: 2951 RYLEVVVLDWA 2983 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAM_ECOLI P37674 2,3-diketo-L-gulonate TRAP transporter small permease protein yiaM (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 14/24 (58%) Frame = -1 Query: 29 GFQTSILSVDELSRYLFVWLTFIG 52 G + S S+D + F+++ F+G Sbjct: 4012 GLEISCFSIDINPDFNFLFMFFLG 3941 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAN_ECOLI P37675 2,3-diketo-L-gulonate TRAP transporter large permease protein yiaN (425 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = +3 Query: 77 RIVDLPMKLVGHKPGGLGYV 96 I+ P+K +GHK G+ ++ Sbjct: 3390 EIISAPVKALGHKLVGVEFI 3449 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAO_ECOLI P37676 2,3-diketo-L-gulonate-binding periplasmic protein yiaO (2,3-DKG-binding protein) (Extracytoplasmic solute receptor protein yiaO) (Precursor) (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.89 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.89, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 8/8 (100%) Frame = -3 Query: 95 AGLSPVMN 102 AGLSPVM+ Sbjct: 665 AGLSPVMH 642 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 12/48 (25%), Positives = 25/48 (52%) Frame = +2 Query: 131 SLEGKGLKVLAYWENGWRDVTNSRAPVKTPADLKGLKIRTNNSPMNIA 178 L G+ + ++ + +N + V N+ AP A++ + + + MNIA Sbjct: 4664 ELGGERIDIVLWDDNPAQFVLNAMAP----AEVASIVVDEDAKTMNIA 4795 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAT_ECOLI P37681 Putative outer membrane protein yiaT (Precursor) (246 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 9/23 (39%) Frame = +2 Query: 173 GISESESRRSGLASYSAQDAWVP 195 G E SGL + + W P Sbjct: 6614 GKQEGSHSISGLITLKPKTGW*P 6682 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAU_ECOLI P37682 Uncharacterized HTH-type transcriptional regulator yiaU (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +1 Query: 44 FESKVGLKVFDRTT 57 F + V ++FDRTT Sbjct: 538 FVADVVSRLFDRTT 579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAV_ECOLI P37683 Inner membrane protein yiaV (Precursor) (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIAW_ECOLI P0ADK4 Inner membrane protein yiaW (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBA_ECOLI P0ADK6 Protein yibA (280 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = -2 Query: 257 LDTMLYKFDDNEIITSAIDKL 277 L + LYK IIT+ +K+ Sbjct: 195 LPSFLYKIKTCRIITAQQNKI 133 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBD_ECOLI P11290 Uncharacterized glycosyltransferase yibD (2.4.-.-) (344 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = -3 Query: 12 IPLYNAGDDFRTCME 26 +PL GD F C E Sbjct: 1193 VPLVPLGDRFCLCFE 1149 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBF_ECOLI P0ACA1 Uncharacterized GST-like protein yibF (202 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 13/26 (50%) Frame = -2 Query: 3 LVGSYTSPFVRKLSILLLEKGITFEF 28 L GS+TSP + + GI F F Sbjct: 6147 LFGSFTSP--AATTAISFNLGIIFIF 6076 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +3 Query: 59 CWFDS 63 CWFDS Sbjct: 2109 CWFDS 2123 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBG_ECOLI P32106 Uncharacterized protein yibG (ORF-A3) (Precursor) (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBH_ECOLI P0AFV0 Inner membrane protein yibH (378 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -2 Query: 286 PGQVFHGKLTSILPVVP 302 PG++F S P++P Sbjct: 4398 PGRMFSRGSISSCPIIP 4348 Score = 16.5 bits (31), Expect = 9.7, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 12/25 (48%) Frame = -1 Query: 26 QWTLATAALGGVFLVSGLILLMNYN 50 QW L T G L+S +N+N Sbjct: 88 QWLLLTR*YWGFELISPPFRAINHN 14 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBI_ECOLI P32108 Uncharacterized protein yibI (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.37, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +1 Query: 74 GWGMQSHVASQEK 86 GW ++H+A +K Sbjct: 2026 GWASEAHLAQMKK 2064 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBJ_ECOLI P32109 Putative uncharacterized protein yibJ (233 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 8/8 (100%) Frame = -2 Query: 114 YYDPLLGR 121 ++DP++GR Sbjct: 6789 WHDPIIGR 6766 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBK_ECOLI P0AGJ7 Uncharacterized tRNA/rRNA methyltransferase yibK (2.1.1.-) (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.82 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.82, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 17/32 (53%) Frame = +1 Query: 55 TAVTRHHDYRAFLEAENPQRLFALTTKGTPAH 86 T ++ D + F+ A+ RLF TT TP+ Sbjct: 505 TKISNDKDNKRFV-ADVVSRLFDRTTL*TPSE 597 Score = 16.5 bits (31), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -1 Query: 101 PETRGL 106 PETRGL Sbjct: 3295 PETRGL 3278 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBL_ECOLI P0ADK8 Uncharacterized protein yibL (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBN_ECOLI P0AG27 Uncharacterized protein yibN (143 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBP_ECOLI P37690 Uncharacterized protein yibP (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBQ_ECOLI P37691 Uncharacterized protein yibQ (Precursor) (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.83 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.83, Method: Compositional matrix adjust. Identities = 20/69 (28%), Positives = 27/69 (39%), Gaps = 2/69 (2%) Frame = +1 Query: 106 IIRSAVNNVPYAVGINNHMGSKMTSNLFGMQKVMQALERYNLYFLDSVTIGNTQAMRA-- 163 IRS A GI H+G+ GM + FLD+ +MRA Sbjct: 6586 CIRSTKVAAGEAGGITQHIGAYHVETENGM-----------VTFLDTPGHAAFTSMRARG 6732 Query: 164 AQGTGVKVI 172 AQ T + V+ Sbjct: 6733 AQATDIVVL 6759 Score = 18.9 bits (37), Expect = 1.5, Method: Compositional matrix adjust. Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 5/38 (13%) Frame = +1 Query: 125 GSKMTSNLFGMQKVMQALERYN-----LYFLDSVTIGN 157 G+ +S LFG + R L+F+ S+ +GN Sbjct: 2620 GAGASSTLFGSSGSGNFMTRMTAILATLFFIVSLVLGN 2733 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBT_ECOLI Q2M7R5 Uncharacterized protein yibT (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 6.5, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = +3 Query: 25 FREYLKKLPPRNA 37 R+Y K+P N+ Sbjct: 690 LRKYHSKVPLANS 728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIBV_ECOLI A5A625 Uncharacterized protein yibV (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.23, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 11/21 (52%) Frame = +2 Query: 47 KEFLTSLSNIMRYKIDAGLSE 67 + FLT+ I R+K+ L Sbjct: 2315 RPFLTTYQRIKRFKVKLRLHR 2377 Score = 16.5 bits (31), Expect = 2.2, Method: Composition-based stats. Identities = 13/43 (30%), Positives = 16/43 (37%) Frame = +2 Query: 49 FLTSLSNIMRYKIDAGLSESYTCYLLSKGKIIRPYLKNLNPLQ 91 L + S RYK E+Y + P LK LN Q Sbjct: 551 LLAACSTEQRYKRQVSGDEAY---------LNAPALKRLNASQ 652 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICC_ECOLI P23839 UPF0701 protein yicC (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 19/34 (55%) Frame = +2 Query: 249 FNRESNTLASKSINAEVTNSAIELKVLIEQMREQ 282 F+R + A + I +V + E V+IEQ REQ Sbjct: 4175 FDRITTQTAKQVIVQKVREA--ERAVVIEQFREQ 4270 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 7/7 (100%) Frame = -1 Query: 42 FRSLEPV 48 FRSLEP+ Sbjct: 2908 FRSLEPI 2888 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICE_ECOLI P0AGM9 Putative purine permease yicE (463 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICG_ECOLI P0AGM2 UPF0126 inner membrane protein yicG (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 14/25 (56%) Frame = +1 Query: 88 VFLVLDALGLVVFSIIGAQVALDMG 112 VF +L ++GL+ ++ DMG Sbjct: 2536 VFFLLISIGLIALIVLQQGKGADMG 2610 Score = 16.2 bits (30), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -2 Query: 82 MPYLRKVFL 90 + YL+K+FL Sbjct: 3180 ISYLKKIFL 3154 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICH_ECOLI P31433 Uncharacterized protein yicH (569 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.72 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.72, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = -1 Query: 85 IALSSRQLTEPRHV 98 I R LTEPR+V Sbjct: 2335 IRCQKRALTEPRYV 2294 Score = 18.5 bits (36), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -1 Query: 61 HIVLENVTFG 70 HI+L N +FG Sbjct: 4372 HILLSNYSFG 4343 Score = 18.5 bits (36), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = +2 Query: 252 QIGRLEVIDAR 262 +IGRLEV AR Sbjct: 1163 KIGRLEVQAAR 1195 Score = 17.7 bits (34), Expect = 6.0, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 14/29 (48%) Frame = -1 Query: 382 LQLKRFSASRNLIIDIDPDFPWQLTALDG 410 L++ FS IDI+PDF + G Sbjct: 4009 LEISCFS------IDINPDFNFLFMFFLG 3941 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICJ_ECOLI P31435 Inner membrane symporter yicJ (460 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 9.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 9.7, Method: Compositional matrix adjust. Identities = 7/8 (87%), Positives = 7/8 (87%) Frame = -3 Query: 374 LAFGGALI 381 L FGGALI Sbjct: 2825 LGFGGALI 2802 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICL_ECOLI P31437 Uncharacterized inner membrane transporter yicL (307 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 11/18 (61%) Frame = -1 Query: 105 LQFLSPTIIVAWFSLVRK 122 L+ +SPT A S VRK Sbjct: 3118 LRVMSPTSYQAAPSRVRK 3065 Score = 17.3 bits (33), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -1 Query: 38 FLTMTRLIFA 47 F TRLIFA Sbjct: 1636 FRDTTRLIFA 1607 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 8/15 (53%) Frame = -1 Query: 191 WSMLIGGLILLPFYA 205 W I LLPFYA Sbjct: 6013 WVQAIYLHFLLPFYA 5969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICN_ECOLI P0ADL3 Uncharacterized protein yicN (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.7, Method: Compositional matrix adjust. Identities = 11/27 (40%), Positives = 11/27 (40%) Frame = -1 Query: 93 QWHRILQKARLAAPITDAQVRLALGFL 119 QW R A I LALGFL Sbjct: 1999 QWDRAADHFSKTAQIMG---DLALGFL 1928 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICO_ECOLI P31440 Putative permease yicO (444 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -1 Query: 45 YIVFVNPQILGAAQMDP 61 + + NP+ G Q+DP Sbjct: 3313 FQITKNPETRGLIQLDP 3263 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YICS_ECOLI Q2M7X4 Uncharacterized protein yicS (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDA_ECOLI P0A8Y5 Phosphatase yidA (3.1.3.-) (270 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.1, Method: Compositional matrix adjust. Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 2/60 (3%) Frame = +2 Query: 102 EVGSHFHALDRTTLYTANRDISYYTVHESFVATIPLVF--CEAEKMDPNTQFLKVMMIDE 159 E G+ A+ R R +S + E V TI + C+AE F++ + IDE Sbjct: 4799 EEGNSAQAIGRNGQNV--RLVSQLSGWELNVMTINELKEKCQAETRTAIDMFIEHLEIDE 4972 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDB_ECOLI P09996 Uncharacterized protein yidB (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.8, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +2 Query: 54 NQQGNQSVSG 63 Q+G+ S+SG Sbjct: 6617 KQEGSHSISG 6646 Score = 16.5 bits (31), Expect = 2.9, Method: Composition-based stats. Identities = 17/72 (23%), Positives = 26/72 (36%) Frame = +2 Query: 26 VEEQGGIQVLLEKLQSGGLGAILSTWLSNQQGNQSVSGEQLESALGTNAVSDLGQKLGVD 85 VEE Q + Q+ L + LS W L +++L +K + Sbjct: 4796 VEEGNSAQAIGRNGQNVRLVSQLSGW-----------------ELNVMTINELKEKCQAE 4924 Query: 86 TSTASSLLAEQL 97 T TA + E L Sbjct: 4925 TRTAIDMFIEHL 4960 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDD_ECOLI P0A8C8 UPF0161 protein yidD (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.7, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 10/17 (58%) Frame = -3 Query: 23 ISPLLGPHCRFTPTCSS 39 I P+ PH + + C+S Sbjct: 2507 ILPMGSPHKKCSLLCAS 2457 Score = 14.6 bits (26), Expect = 5.8, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 9/20 (45%) Frame = +3 Query: 49 GVIKGSWLTVKRVLKCHPLH 68 G K WL K L +P H Sbjct: 3837 G*TKRFWLL*KPFLMRNPFH 3896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDE_ECOLI P60872 Putative transport protein yidE (553 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDF_ECOLI P31443 Uncharacterized protein yidF (165 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.93 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.93, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 7/31 (22%) Frame = +1 Query: 4 SQVID-------AEEDRHKLVVEYKDALQPA 27 +QVID AEE HK+++ ++ L+ A Sbjct: 6388 NQVIDQETAQLVAEEMGHKVILRRENELEEA 6480 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDG_ECOLI P0ADL6 Inner membrane protein yidG (120 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDH_ECOLI P0ADM0 Inner membrane protein yidH (115 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.68 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.68, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 8/8 (100%) Frame = -1 Query: 18 NERTFLAW 25 N+R++L+W Sbjct: 4762 NDRSYLSW 4739 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDI_ECOLI P31446 Inner membrane protein yidI (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +2 Query: 52 KRGLLA 57 KRGLLA Sbjct: 6191 KRGLLA 6208 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDJ_ECOLI P31447 Uncharacterized sulfatase yidJ (3.1.6.-) (497 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.33, Method: Compositional matrix adjust. Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 6/54 (11%) Frame = -1 Query: 120 ADYWFDGANYLSELTEKEISL------WRNGLNSVEDLQANHIDETFTWAHRIS 167 A W + ++S +T ++S+ WR G+NS N + FT A IS Sbjct: 3541 ALTW*LTSAHISTVTPSQLSI*IRSVDWRPGINSTP---TNLCPKAFTGAEIIS 3389 Score = 21.6 bits (44), Expect = 0.41, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +3 Query: 107 DYFGTGECPPEWD 119 DYF G+C W+ Sbjct: 198 DYFSNGQCGSRWN 236 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 14/30 (46%) Frame = -1 Query: 208 ADFYYELGEKAQDDLANKPEHHRLWAQAMP 237 A + YEL + + + EH+ L +P Sbjct: 3031 ASYLYELVPRTGFEPVSPIEHYHLKVACLP 2942 Score = 17.7 bits (34), Expect = 6.1, Method: Compositional matrix adjust. Identities = 12/36 (33%), Positives = 19/36 (52%) Frame = +2 Query: 341 IEKPEILPGENILAVKEPRGVMVEFNRYEIEHDSFG 376 I + ++LP ENI RG++ YEI ++ G Sbjct: 4355 IGQEDMLPRENIRPGDRIRGIL-----YEIRPEARG 4447 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDK_ECOLI P31448 Uncharacterized symporter yidK (571 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.7, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 12/22 (54%) Frame = +1 Query: 295 VLVLPGLIAFHLYQDLPKADMA 316 +L+ GLIA + Q ADM Sbjct: 2545 LLISIGLIALIVLQQGKGADMG 2610 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDL_ECOLI P31449 Uncharacterized HTH-type transcriptional regulator yidL (307 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.0, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -3 Query: 63 KKKPLIANSWVA 74 KKK LIA S+ + Sbjct: 3344 KKKGLIAQSFFS 3309 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDP_ECOLI P31453 Uncharacterized HTH-type transcriptional regulator yidP (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDQ_ECOLI P0ADM4 Uncharacterized protein yidQ (Precursor) (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.60, Method: Composition-based stats. Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 3/23 (13%) Frame = -3 Query: 87 RVEKSEANAQATNA---VIPPAR 106 R E++E + T V+PPAR Sbjct: 4730 R*ERTEQDYHPTKRYQYVLPPAR 4662 Score = 15.0 bits (27), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 100 AVIPPARM 107 AVI P+R+ Sbjct: 386 AVINPSRL 363 Score = 15.0 bits (27), Expect = 6.0, Method: Composition-based stats. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = +2 Query: 50 TNWGTKSLAILDMPFTA 66 T+W + A D+PF Sbjct: 920 TDWIKWNRADEDVPFAG 970 Score = 15.0 bits (27), Expect = 6.1, Method: Composition-based stats. Identities = 5/21 (23%), Positives = 12/21 (57%) Frame = +2 Query: 3 RNVLLAFMICSGMTLLGGCSS 23 ++V++ + + LL CS+ Sbjct: 509 KSVMIKIISVLWLMLLAACST 571 Score = 14.6 bits (26), Expect = 8.9, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +1 Query: 21 CSSVMSHTGGK 31 CSS + GG+ Sbjct: 4645 CSSCV*RAGGR 4677 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDR_ECOLI P31455 Uncharacterized protein yidR (404 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.45, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 9/13 (69%) Frame = -2 Query: 307 DNGIVQLWLISPQ 319 DNGIVQL + Q Sbjct: 2001 DNGIVQLIIFQKQ 1963 Score = 20.0 bits (40), Expect = 0.80, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 17/35 (48%) Frame = +2 Query: 215 ALAFIGDTLSPKGEKVPELFIVELPQDEAGWKAAG 249 ALA IG T++ + + + + P + W A G Sbjct: 1265 ALAKIGMTVTKRDRQQGNIAVTYSPINSRDWDALG 1369 Score = 16.9 bits (32), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +2 Query: 228 EKVPELFIVELPQ 240 E + ELF +E+P+ Sbjct: 4478 EMLIELFRIEVPE 4516 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDX_ECOLI P0ADM6 Uncharacterized protein yidX (218 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.32 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.32, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 17/33 (51%) Frame = -3 Query: 133 HYGFACGVQHCTRSLENLKGTIHEKNKNMDYSK 165 HY + CG SL+++ T H+ N YSK Sbjct: 1148 HYCYYCGFY---LSLQSIYST*HDCNVVSRYSK 1059 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIDZ_ECOLI P31463 HTH-type transcriptional regulator yidZ (319 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.0, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +2 Query: 297 RNSHNPKI 304 R +HNPK+ Sbjct: 3098 RRAHNPKV 3121 Score = 16.2 bits (30), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 120 YQRYPQATIKLR 131 YQR + +KLR Sbjct: 2333 YQRIKRFKVKLR 2368 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIEE_ECOLI P0ADM8 Uncharacterized protein yieE (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 10/17 (58%) Frame = -3 Query: 21 SVRLPSQCHQEARNIPP 37 SV LPS ++ IPP Sbjct: 278 SVNLPSATR*QSSVIPP 228 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIEF_ECOLI P0AGE6 Uncharacterized protein yieF (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = -3 Query: 41 PSIADIPLYDADVQ 54 PSIAD+ L ++ + Sbjct: 1715 PSIADVSLRNSSTK 1674 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIEG_ECOLI P31466 Putative permease yieG (445 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIEH_ECOLI P31467 Phosphatase yieH (3.1.3.-) (221 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.7, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 14/30 (46%) Frame = -1 Query: 180 MEVFYFCADPHNKPIVHPKVTTFTHLSQLP 209 + FY +D H HP+ F SQ+P Sbjct: 2224 LTSFYPTSDSHRGKTHHPR*FYF-QTSQIP 2138 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIEK_ECOLI P31470 Uncharacterized protein yieK (240 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -1 Query: 131 HFCGNL 136 H CGNL Sbjct: 865 HHCGNL 848 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIEL_ECOLI P31471 Uncharacterized protein yieL (389 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIEP_ECOLI P31475 Uncharacterized HTH-type transcriptional regulator yieP (230 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIFB_ECOLI P22787 Uncharacterized protein yifB (506 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +3 Query: 132 SGRKIIVAKDNEDEV 146 G IIV D +DEV Sbjct: 3723 DGEMIIVTVDGKDEV 3767 Score = 16.9 bits (32), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -1 Query: 355 NHNRCT 360 NHNRC Sbjct: 22 NHNRCV 5 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIFE_ECOLI P0ADN2 UPF0438 protein yifE (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.85, Method: Composition-based stats. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +3 Query: 104 AEDYTD 109 AEDYTD Sbjct: 3624 AEDYTD 3641 Score = 17.7 bits (34), Expect = 0.99, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -2 Query: 21 FSRHGDFTIKEAQLLER 37 FSR DF+++ A R Sbjct: 3903 FSRGRDFSLETASTTAR 3853 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIFK_ECOLI P27837 Probable transport protein yifK (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.4, Method: Compositional matrix adjust. Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 11/50 (22%) Frame = -2 Query: 77 AVYAHRYMSPFFGYLTAWSYW---------FMWMA--VGISEITAIGVYV 115 ++ R S F +T ++ W +W + VGIS+ IGV+ Sbjct: 4254 SITTARSASRTFCTITCFAVWVVMRSKTTDLIWSSI*VGISDSVEIGVFC 4105 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIFL_ECOLI P0ADN6 Uncharacterized lipoprotein yifL (Precursor) (67 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.001 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 26.2 bits (56), Expect = 0.001, Method: Composition-based stats. Identities = 13/30 (43%), Positives = 17/30 (56%) Frame = -1 Query: 1 MKNVFKALTVLLTLFSLTGCGLKGPLYFPP 30 +K + AL L LFSL G +K LY+ P Sbjct: 2548 VKKILAALRT*LYLFSLWGHHIKNALYYVP 2459 Score = 14.6 bits (26), Expect = 4.0, Method: Composition-based stats. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 7 ALTVLL 12 ALTVLL Sbjct: 2760 ALTVLL 2743 Score = 13.9 bits (24), Expect = 6.6, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 8 LTVLLTLF 15 LTV +T+F Sbjct: 4299 LTVAVTIF 4276 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIFN_ECOLI P56259 Putative uncharacterized protein yifN (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = -1 Query: 119 RGYLNQCLPH 128 R LN C PH Sbjct: 4660 RHSLNTCSPH 4631 Score = 15.0 bits (27), Expect = 9.8, Method: Compositional matrix adjust. Identities = 3/7 (42%), Positives = 6/7 (85%) Frame = +3 Query: 57 NACIVVP 63 +C++VP Sbjct: 5082 KSCVIVP 5102 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGA_ECOLI P23305 Uncharacterized protein yigA (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.76, Method: Compositional matrix adjust. Identities = 7/32 (21%), Positives = 17/32 (53%) Frame = +1 Query: 44 PHPVRGTVSLVEWHMARARNHIHVLEENMALL 75 P P+ + L ++H+ +++ +EN A + Sbjct: 6004 PEPIAEQIELTDYHVTTSQHARAAEDENDAKV 6099 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGB_ECOLI P0ADP0 Uncharacterized protein yigB (238 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 5/8 (62%) Frame = +2 Query: 69 YHDVTRWR 76 YH RWR Sbjct: 3707 YHQGCRWR 3730 Score = 16.5 bits (31), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -3 Query: 40 QNYHPALR 47 Q+YHP R Sbjct: 4712 QDYHPTKR 4689 Score = 16.2 bits (30), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 212 GDLMQTW 218 GDL+Q W Sbjct: 6112 GDLLQPW 6092 Score = 15.8 bits (29), Expect = 8.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -1 Query: 103 INFAKWRSR 111 +NF KW +R Sbjct: 3823 LNF*KWGAR 3797 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGE_ECOLI P27840 Uncharacterized protein yigE (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%), Gaps = 1/15 (6%) Frame = +3 Query: 49 TVNPQTERVKM-YWQ 62 + NPQ RVK +W+ Sbjct: 48 SSNPQYHRVKRSHWK 92 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGF_ECOLI P27842 Uncharacterized protein yigF (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.55, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -3 Query: 44 LKVRQRLTIQMNFIAFF 60 L RQR+ NF+ F Sbjct: 5177 LTSRQRVCYHQNFLLFL 5127 Score = 15.4 bits (28), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 111 KWFYEKEVKGLN 122 KW + +V GLN Sbjct: 5975 KWQQKMKVNGLN 6010 Score = 15.4 bits (28), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 113 FYEKEVKGL 121 Y+KE KGL Sbjct: 176 LYKKEGKGL 202 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGG_ECOLI P27843 Inner membrane protein yigG (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.1, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 2/29 (6%) Frame = -1 Query: 67 SGFIYIKTYVF--GTLAVYIISIITMIAE 93 SGF+ KT+ F YI+ IT + + Sbjct: 5164 SGFVITKTFFFF*SQCGQYILGTITQLLK 5078 Score = 17.7 bits (34), Expect = 1.2, Method: Composition-based stats. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = +3 Query: 106 LICYFSTFSMLMLAPTDSSKQ 126 LIC + ++ AP SKQ Sbjct: 4938 LICLSNILKLMKSAPQFWSKQ 5000 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGI_ECOLI P0ADP2 Uncharacterized protein yigI (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.94 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.94, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -3 Query: 126 AGNKVAVARVEL 137 +GN + V RVEL Sbjct: 779 SGNPLIVPRVEL 744 Score = 16.2 bits (30), Expect = 4.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 62 GVIASALDVAAG 73 G+I+ +VAAG Sbjct: 196 GIISVTANVAAG 231 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGL_ECOLI P27848 Uncharacterized protein yigL (266 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = +3 Query: 166 ARWGDRVNVSFSTLTCL 182 WG+ V +SF + L Sbjct: 4662 TSWGENVLISFCGMIIL 4712 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 6/28 (21%) Frame = +2 Query: 230 IMGSAHQR------LKDLHPELEVIGTN 251 +MGS H+R LK L ++ T Sbjct: 6773 MMGSCHRRSRPSNMLKQRKSPLSLLSTK 6856 Score = 16.2 bits (30), Expect = 7.9, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = -2 Query: 124 FKEAVFQYALY 134 FK+A FQ+ ++ Sbjct: 2157 FKQAKFQFEIH 2125 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGM_ECOLI P0ADP5 Uncharacterized membrane protein yigM (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGP_ECOLI P0ADP7 Uncharacterized protein yigP (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +1 Query: 62 EWAGDA 67 EW GD+ Sbjct: 6925 EWGGDS 6942 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIGZ_ECOLI P27862 IMPACT family member yigZ (204 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.4, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 14/47 (29%) Frame = +3 Query: 146 HQLTGIEALLGQ----------CDGKIINS----DYQAFVLLRVALP 178 H+L G+E + G+ CDG ++ YQ +L V P Sbjct: 3423 HKLVGVEFIPGRQSTLRIYIDNCDGVTVDMCADVSYQVSAVLDVEEP 3563 Score = 15.8 bits (29), Expect = 7.9, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 10/19 (52%) Frame = +2 Query: 154 LLGQCDGKIINSDYQAFVL 172 L G+C + +DY + L Sbjct: 3527 LPGECRARC*RADYLSLQL 3583 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHD_ECOLI P0ADP9 Protein yihD (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.45 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.45, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = -3 Query: 17 WQKEPDLN 24 W +EPDLN Sbjct: 3149 WLREPDLN 3126 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHF_ECOLI P32128 Uncharacterized protein yihF (Precursor) (476 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHG_ECOLI P32129 Probable acyltransferase yihG (2.3.-.-) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 19/34 (55%) Frame = -1 Query: 45 LLLPVPVIWRKVSRFCDFMMYCWCEGLAVLLHLN 78 LLL +PV+++ R D++ +A+ HLN Sbjct: 388 LLLLIPVVYKPT*RQLDWLR*IILYVVALNAHLN 287 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -1 Query: 274 YINDKSFKRHFQ 285 Y N + F +HF+ Sbjct: 4510 YFNAEKFNQHFR 4475 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHI_ECOLI P0A8H6 UPF0241 protein yihI (169 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHL_ECOLI P0ACM9 Uncharacterized HTH-type transcriptional regulator yihL (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHM_ECOLI P32134 Uncharacterized protein yihM (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 11/18 (61%) Frame = -3 Query: 298 EKEDAINQINHVRNVLQQ 315 +K + I+H + +LQQ Sbjct: 3911 QKSSHVEGISH*KRLLQQ 3858 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHN_ECOLI P32135 Inner membrane protein yihN (421 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 6.6, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 9/14 (64%) Frame = +3 Query: 159 WFGSGLLGFKAGIW 172 WF S GF+ GIW Sbjct: 2112 WFDSS--GFQTGIW 2147 Score = 16.9 bits (32), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = +3 Query: 124 RLGNSEQQGRLFGFF 138 R+G+S + R+ GFF Sbjct: 3258 RIGSSCIKPRVSGFF 3302 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHO_ECOLI P32136 Uncharacterized symporter yihO (467 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 14/49 (28%) Frame = -3 Query: 162 ATIGLLICTVAFIPLQSL--------------FSDSTVGYACAALMFSI 196 +TIGLL + F L S FS + +AC+ L FS+ Sbjct: 5834 STIGLLFVSAIFFALASFALSLFACSSALAGFFSTCSTCFACSVLAFSV 5688 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 271 NLLSWMGFF 279 NLL+W GF Sbjct: 3907 NLLTWKGFL 3881 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHP_ECOLI P32137 Inner membrane symporter yihP (461 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = -3 Query: 385 VSQALAGFFP 394 S ALAGFF Sbjct: 5762 CSSALAGFFS 5733 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHQ_ECOLI P32138 Alpha-glucosidase yihQ (3.2.1.20) (678 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 8/16 (50%) Frame = -2 Query: 193 YYCHVDNSCYMNFDFS 208 Y CH SCY + S Sbjct: 5394 YICHAVPSCYSYYALS 5347 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHR_ECOLI P32139 Uncharacterized protein yihR (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.2, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 13/31 (41%), Gaps = 2/31 (6%) Frame = +3 Query: 273 EPMSCPPNAFNSGIDLLLLESGKP--HRLFF 301 EP++CP N LE P RL F Sbjct: 3558 EPITCPYN----------LEVSSPGLERLLF 3620 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 9/20 (45%) Frame = -3 Query: 234 LWEMTITHPQQALSVSLCSD 253 +W + H AL S C + Sbjct: 5120 MWSVHSGHDHAALEASFCQN 5061 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 250 LCSDQLWVQVY 260 CS LW+ V+ Sbjct: 6897 FCSKTLWISVW 6865 Score = 16.5 bits (31), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = -2 Query: 118 VTLTAFLPPSYGY 130 VTL F PP+ Y Sbjct: 3672 VTLN*FFPPNSQY 3634 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHS_ECOLI P32140 Uncharacterized sugar isomerase yihS (5.-.-.-) (413 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.46, Method: Compositional matrix adjust. Identities = 11/26 (42%), Positives = 14/26 (53%) Frame = +1 Query: 139 IEIIEKYFWSEEEQMCLESWDEAFSK 164 +E +EK EEQ ES EA +K Sbjct: 5722 VEQVEKKPAKAEEQAKSESAKEANAK 5799 Score = 17.7 bits (34), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 14/24 (58%) Frame = -1 Query: 70 GAYSLVDHGIKAMNGALRDKKYGG 93 G+Y++ ++ + RD ++GG Sbjct: 4192 GSYAVKNYRFNLVFNISRDFRFGG 4121 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +3 Query: 152 QMCLESWDE 160 ++CL SW E Sbjct: 4650 KLCLTSWGE 4676 Score = 17.3 bits (33), Expect = 5.7, Method: Compositional matrix adjust. Identities = 13/41 (31%), Positives = 17/41 (41%), Gaps = 3/41 (7%) Frame = +2 Query: 217 NEHFDTQWNPLPDY--NKDNP-AHRFRAFGGTPGHWIEWGR 254 N DT W+ + N+ P A R A WI+W R Sbjct: 821 NRQNDTLWSQITTVMQNESLPIADRQDANQTLTTDWIKWNR 943 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHT_ECOLI P32141 Uncharacterized aldolase yihT (4.1.-.-) (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 11/22 (50%) Frame = -3 Query: 191 LYKVEMPLYGKGPQQELLCASQ 212 +++ + L+G P CAS Sbjct: 5579 IFRCNVSLFGT*PGSCFKCASN 5514 Score = 18.1 bits (35), Expect = 2.1, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 13/30 (43%) Frame = -3 Query: 70 CYRQVVEQNAIAKSCAMIVAADEFIPGNGI 99 C R+ E A S M+ + F+P I Sbjct: 5447 CMRRSTEVEISAASNFMVTSVMLFLPATVI 5358 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHU_ECOLI P0A9V8 Uncharacterized oxidoreductase yihU (1.1.-.-) (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHV_ECOLI P32143 Uncharacterized sugar kinase yihV (2.7.1.-) (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +3 Query: 138 RWHDGA 143 RW+DGA Sbjct: 228 RWNDGA 245 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHW_ECOLI P32144 Uncharacterized HTH-type transcriptional regulator yihW (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -1 Query: 2 SLTELTGNPRHD 13 SLT NPR+D Sbjct: 1924 SLTASPVNPRYD 1889 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIHX_ECOLI P0A8Y3 Phosphatase yihX (3.1.3.-) (199 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.43, Method: Compositional matrix adjust. Identities = 22/90 (24%), Positives = 35/90 (38%) Frame = +2 Query: 78 WQAVFVALRPEVIAIMHKLREQGHRVVVLSNTNRLHTTFWPEEYPEIRDAADHIYLSQDL 137 WQ + AL + + + R+QG+ V S N + W DA L Sbjct: 1247 WQRLPPALAKIGMTVTKRDRQQGNIAVTYSPIN---SRDW--------DA---------L 1366 Query: 138 GMRKPEARIYQHVLQAEGFSPSDTVFFDDN 167 G + P+ + + LQ F +V F D+ Sbjct: 1367 GAQDPKLKSGSYQLQVGDFGNRSSVQFTDS 1456 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 10/19 (52%) Frame = -2 Query: 134 SQDLGMRKPEARIYQHVLQ 152 +QDLGMR R LQ Sbjct: 3609 AQDLGMRPLSCRDR*SALQ 3553 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIID_ECOLI P0ADQ2 Uncharacterized protein yiiD (329 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.98 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.98, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = +2 Query: 15 IAMYHLRVPQTEEEL 29 I ++ + VP+ +EEL Sbjct: 4487 IELFRIEVPEIDEEL 4531 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 309 TYIVLPAKPFG 319 TYIV+P P G Sbjct: 2525 TYIVVPILPMG 2493 Score = 16.5 bits (31), Expect = 8.1, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 8/17 (47%) Frame = +2 Query: 40 LRKPLHQPKGSERDAWD 56 L KP+ P + WD Sbjct: 326 LSKPIQLPLSGLVNDWD 376 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIE_ECOLI P0ADQ5 Uncharacterized protein yiiE (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +1 Query: 4 VFLHLSEEAIKRLNKLRGWRKV 25 + HL E + NKL RK+ Sbjct: 5515 LLAHLKHEPGQVPNKLTLQRKI 5580 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIF_ECOLI P0AFU6 Uncharacterized protein yiiF (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIG_ECOLI P32151 Uncharacterized protein yiiG (351 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.10 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.10, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 17/25 (68%) Frame = -3 Query: 89 QIPVQRSLARYADWLKDFKQGPTGE 113 ++P +RSL+ +++ K+ P+GE Sbjct: 2258 KLPRKRSLSIFSNVFLSHKRQPSGE 2184 Score = 17.3 bits (33), Expect = 5.2, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 4/33 (12%) Frame = +1 Query: 202 PVAESYHAAIQEINDKR----QLAELKNIEERE 230 P+ E Q+ +DK + AELK ERE Sbjct: 5824 PIVEKKKLTTQQQSDKTRREAEAAELKRSVERE 5922 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIM_ECOLI P32157 Protein yiiM (224 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 137 QNTGKVGWL 145 QNT K+G L Sbjct: 1151 QNTDKIGRL 1177 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 4/32 (12%) Frame = -2 Query: 57 LCHYPREHYLYWAREFPEQ----AELFVAPAF 84 +CH Y Y+A P Q A + PAF Sbjct: 5391 ICHAVPSCYSYYALS-PNQQILRAAIINLPAF 5299 Score = 15.8 bits (29), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -1 Query: 59 HYPREHYLY 67 H+P+ YLY Sbjct: 3043 HHPKASYLY 3017 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIQ_ECOLI P32160 Uncharacterized protein yiiQ (Precursor) (199 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIR_ECOLI P0AF34 Uncharacterized protein yiiR (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.7, Method: Composition-based stats. Identities = 13/40 (32%), Positives = 18/40 (45%) Frame = -3 Query: 25 LWFAGMLVLFSLAGKNLLDIQTAAFCLVCLLWPTAAVTVK 64 L F G L+ SLAG C + L+ P +T+K Sbjct: 2825 LGFGGALIFSSLAG*LRFSHSLL*RCCLLLILPKTRLTIK 2706 Score = 15.0 bits (27), Expect = 8.5, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -2 Query: 21 IWIGLWF 27 +WI +WF Sbjct: 6882 LWISVWF 6862 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIS_ECOLI P32162 UPF0381 protein yiiS (99 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -3 Query: 26 CTSKFSRFFAT 36 C+S + FF+T Sbjct: 5762 CSSALAGFFST 5730 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIIX_ECOLI P32167 Uncharacterized protein yiiX (Precursor) (202 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 128 CSEVVWK 134 CSE+ WK Sbjct: 5595 CSELRWK 5615 Score = 15.8 bits (29), Expect = 7.4, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 9/11 (81%) Frame = -3 Query: 4 RLLILSLLVSV 14 RLL LSLL+ V Sbjct: 536 RLLSLSLLIFV 504 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIJD_ECOLI P0AF40 Inner membrane protein yijD (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 6.5, Method: Composition-based stats. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -3 Query: 26 AALFSSIVPFSVFPIISLVL 45 AAL +S FP+I ++ Sbjct: 5090 AALEASFCQNYQFPVIRFLV 5031 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIJE_ECOLI P0ABT8 Uncharacterized inner membrane transporter yiJE (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/11 (72%), Positives = 8/11 (72%) Frame = -1 Query: 165 GASAIVAKRLY 175 G SAIV RLY Sbjct: 1213 G*SAIVTCRLY 1181 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIJF_ECOLI P32668 Uncharacterized protein yijF (Precursor) (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 9/26 (34%), Positives = 13/26 (50%) Frame = -1 Query: 28 VVQIQANTNLAIADGARQQIGSTLFY 53 ++ + +TNL A IGS FY Sbjct: 1006 LISLLLHTNLITACKGDIFIGSVPFY 929 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YIJO_ECOLI P32677 Uncharacterized HTH-type transcriptional regulator yijO (283 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 1/19 (5%) Frame = -3 Query: 191 VAQAFYISPNYLS-HLFQK 208 V+Q FY NYL LFQ+ Sbjct: 3425 VSQGFYRC*NYLC*FLFQR 3369 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 17/35 (48%) Frame = +1 Query: 232 GYDLKVKEVAHACGFVDSNYFCRLFRKNTERSPSE 266 GY K+ FV ++ RLF + T +PSE Sbjct: 496 GYITKISNDKDNKRFV-ADVVSRLFDRTTL*TPSE 597 Score = 16.2 bits (30), Expect = 7.6, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 10/16 (62%) Frame = -3 Query: 6 SYLLSRLINGPLSLRQ 21 +YLL L + L LRQ Sbjct: 4811 NYLLQLLCSSFLRLRQ 4764 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJAA_ECOLI P09162 Uncharacterized protein yjaA (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.5, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 100 LMKYRQFH 107 L +YR+FH Sbjct: 698 LAQYRKFH 675 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJAB_ECOLI P09163 Uncharacterized N-acetyltransferase yjaB (2.3.1.-) (147 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJAG_ECOLI P32680 Uncharacterized protein yjaG (196 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.0, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 8/9 (88%) Frame = +3 Query: 1 MLQNPIHLR 9 +++NP H+R Sbjct: 3876 LMRNPFHVR 3902 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJAH_ECOLI P32681 Uncharacterized protein yjaH (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = +3 Query: 51 AVRIWRKDSGDNVHLLAVF 69 AVR +RK S + + AVF Sbjct: 1914 AVRDYRKPSAKSPII*AVF 1970 Score = 16.2 bits (30), Expect = 6.9, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 2/33 (6%) Frame = +1 Query: 150 LRQGRVVLRQGRWHAMEQTVTTCEGQTIK--PD 180 LR + + RW + + T TIK PD Sbjct: 682 LRYCASITARCRWQTVRHSATNSTLGTIKGFPD 780 Score = 15.8 bits (29), Expect = 8.1, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = -3 Query: 31 CSHNSSLPP 39 C H ++ PP Sbjct: 4388 CFHEAAYPP 4362 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBB_ECOLI P0AF43 Uncharacterized protein yjbB (543 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -1 Query: 268 SLPKAELVIYFHVFYNLVRC 287 SL + + FY+L+RC Sbjct: 2386 SLQSVQAQFHLKSFYSLIRC 2327 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = -2 Query: 279 HVFYNLVRCLVMLPFVD 295 H F N +RC ++ VD Sbjct: 6435 HFFSNQLRCFLINNLVD 6385 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 21/92 (22%), Positives = 39/92 (42%), Gaps = 4/92 (4%) Frame = +1 Query: 325 LDTPTLALANAARETLRIGDAMEQMMEGLNKV---MHGEPRQEKELRKLADDINV-LYTA 380 ++TP LAN + +EQ+ + K E +E +K+AD + + Sbjct: 5659 INTPNAELANTEKAKTEQAKQVEQVEKKPAKAEEQAKSESAKEANAKKIADTKSKPIVEK 5838 Query: 381 IKLYLARMPKEELAEEESRRWAEIIEMSLNLE 412 KL + +++RR AE E+ ++E Sbjct: 5839 KKLTTQQQS------DKTRREAEAAELKRSVE 5916 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBD_ECOLI P32685 Uncharacterized protein yjbD (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBE_ECOLI P0AF45 Uncharacterized protein yjbE (Precursor) (80 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBF_ECOLI P32687 Uncharacterized lipoprotein yjbF (Precursor) (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 59 GPQLFV 64 GPQLF+ Sbjct: 4445 GPQLFI 4462 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBG_ECOLI P32688 Uncharacterized protein yjbG (Precursor) (245 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBH_ECOLI P32689 Uncharacterized lipoprotein yjbH (Precursor) (698 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBI_ECOLI P32690 Putative uncharacterized protein yjbI (442 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +1 Query: 18 GYIDLSDLDLTSCH 31 GY + D L SC+ Sbjct: 1054 GYFEYRDTTLQSCY 1095 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBJ_ECOLI P68206 UPF0337 protein yjbJ (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.3, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +3 Query: 6 AGGNWKQFKGKVKEQWGKLTDD 27 +G ++ F G WG TDD Sbjct: 6735 SGNRYRGF-GCCGR*WGHATDD 6797 Score = 13.5 bits (23), Expect = 8.6, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 6/13 (46%) Frame = +2 Query: 9 NWKQFKGKVKEQW 21 NW K+K W Sbjct: 2135 NWNLACLKIKSPW 2173 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBL_ECOLI P32693 Uncharacterized protein yjbL (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.9, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +1 Query: 78 ARKKMCF 84 ARK CF Sbjct: 994 ARKSACF 1014 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBM_ECOLI P32694 Uncharacterized protein yjbM (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -1 Query: 83 HFQAIGSGF 91 H Q I +GF Sbjct: 1414 HLQLIATGF 1388 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBO_ECOLI P32696 Uncharacterized protein yjbO (80 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.34, Method: Composition-based stats. Identities = 7/15 (46%), Positives = 11/15 (73%) Frame = -3 Query: 18 GVSLLGIIAALVVAT 32 G+SLLG AL+ ++ Sbjct: 2837 GISLLGFGGALIFSS 2793 Score = 15.8 bits (29), Expect = 2.1, Method: Composition-based stats. Identities = 8/33 (24%), Positives = 17/33 (51%) Frame = +2 Query: 42 ALMIKLLPWLLLAIAVVWVIKAIKAPKVPKYQR 74 ++MIK+ I+V+W++ +Y+R Sbjct: 512 SVMIKI-------ISVLWLMLLAACSTEQRYKR 589 Score = 14.6 bits (26), Expect = 4.7, Method: Composition-based stats. Identities = 11/34 (32%), Positives = 17/34 (50%) Frame = +3 Query: 18 GVSLLGIIAALVVATAIMFLGGMLALMIKLLPWL 51 +S +I A VVA L G+ + K++ WL Sbjct: 1398 AISCKWVILATVVACNSPILKGIH*INNKMMRWL 1499 Score = 14.6 bits (26), Expect = 5.3, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +3 Query: 46 KLLPWLLLAI 55 K+LP +LAI Sbjct: 5241 KILPNRVLAI 5270 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBQ_ECOLI P0AF48 UPF0047 protein yjbQ (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -1 Query: 126 GGSRRIIATL 135 GG+RR++ +L Sbjct: 4126 GGNRRVLLSL 4097 Score = 15.0 bits (27), Expect = 7.2, Method: Composition-based stats. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -2 Query: 84 ADDMPSHIKSSMLGTSLVL 102 A +P+H + SLVL Sbjct: 4641 APRIPTHAPIGSIRLSLVL 4585 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBR_ECOLI P0AF50 Uncharacterized protein yjbR (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.57 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.57, Method: Compositional matrix adjust. Identities = 9/22 (40%), Positives = 11/22 (50%) Frame = +2 Query: 16 AEQSVHNDWKATQIKVEDVLFA 37 A Q++ DW EDV FA Sbjct: 902 ANQTLTTDWIKWNRADEDVPFA 967 Score = 18.1 bits (35), Expect = 0.80, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +2 Query: 1 MTISELLQYCMAK 13 MTI+EL + C A+ Sbjct: 4886 MTINELKEKCQAE 4924 Score = 15.8 bits (29), Expect = 4.0, Method: Composition-based stats. Identities = 9/27 (33%), Positives = 12/27 (44%) Frame = +1 Query: 9 YCMAKPGAEQSVHNDWKATQIKVEDVL 35 YC A A ++ K +V DVL Sbjct: 2011 YCKAFGWASEAHLAQMKKLSYQVNDVL 2091 Score = 15.0 bits (27), Expect = 7.3, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 44 NRPAVSLKTS 53 N+P SLK++ Sbjct: 2153 NKPNSSLKST 2124 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBS_ECOLI P58036 Uncharacterized protein yjbS (67 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJBT_ECOLI A5A628 Uncharacterized protein yjbT (Precursor) (92 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 8.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 8.9, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 10/21 (47%) Frame = -2 Query: 71 FRLYTPDRKPGVNCVPDGSTG 91 F + +PD +C P + G Sbjct: 6660 FNVISPDMLCDPSCFPCRNFG 6598 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCB_ECOLI P32700 Uncharacterized protein yjcB (93 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.47, Method: Compositional matrix adjust. Identities = 5/18 (27%), Positives = 8/18 (44%) Frame = +1 Query: 70 WHNIESVMIEEMNQTPPQ 87 W N+ +E PP+ Sbjct: 2767 WENLSQPAKDEKISAPPK 2820 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCC_ECOLI P32701 Uncharacterized protein yjcC (528 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.033 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.033, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 15/22 (68%) Frame = +2 Query: 136 DTPFFSGYKMTYMQRGNYVAVI 157 D PF Y+++ Q+GN +A++ Sbjct: 953 DVPFAGRYQISVQQQGNQLALV 1018 Score = 18.9 bits (37), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = -1 Query: 337 YVIDNVFRDLGDY 349 ++ +N+FR LG Y Sbjct: 4222 FLYNNLFRCLGSY 4184 Score = 17.3 bits (33), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = -2 Query: 152 NYVAVINPLFWSEVM 166 N + +PLFW + + Sbjct: 6951 NKWGISSPLFWQDTV 6907 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCD_ECOLI P0AF52 Putative permease yjcD (449 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCE_ECOLI P32703 Uncharacterized Na(+)/H(+) exchanger yjcE (549 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 5/7 (71%) Frame = +1 Query: 212 RWGGDEP 218 WGGD P Sbjct: 6925 EWGGDSP 6945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCF_ECOLI P32704 Uncharacterized protein yjcF (430 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCH_ECOLI P0AF54 Inner membrane protein yjcH (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCO_ECOLI P0AF56 Uncharacterized protein yjcO (Precursor) (229 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = +3 Query: 5 IALMLFLTFFAHAND 19 IAL LF FF+ A + Sbjct: 2412 IALRLFAIFFSDARN 2456 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = -2 Query: 27 LKAAEAGDRRAQYFLADSWFS 47 L+ A R YFL SW + Sbjct: 2841 LRNIAARFWRRAYFLIFSWLT 2779 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 207 WLNLSC 212 WL+LSC Sbjct: 5398 WLHLSC 5381 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCS_ECOLI P32717 Uncharacterized protein yjcS (661 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 9/10 (90%) Frame = +2 Query: 49 KSLPFSDRQD 58 +SLP +DRQD Sbjct: 872 ESLPIADRQD 901 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJCZ_ECOLI P39267 Uncharacterized protein yjcZ (292 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 179 AFGDACRL 186 +FG+ CRL Sbjct: 1242 SFGNVCRL 1265 Score = 17.3 bits (33), Expect = 3.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +1 Query: 123 FSARCRWK 130 +ARCRW+ Sbjct: 700 ITARCRWQ 723 Score = 16.9 bits (32), Expect = 4.7, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 13/16 (81%) Frame = +2 Query: 66 PLSLRLTLVEKLASML 81 PLS+RLT V+ LA ++ Sbjct: 1994 PLSVRLT-VKPLAGLV 2038 Score = 16.9 bits (32), Expect = 5.5, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 234 GEHADFLSWL 243 EH + L+WL Sbjct: 2867 SEHKEILNWL 2896 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDA_ECOLI P16694 Uncharacterized protein yjdA (742 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/31 (22%), Positives = 15/31 (48%) Frame = +1 Query: 104 ALPTLIRHTPGQKEPVLHFSHVAPIDCLIQQ 134 +PT + E ++ + PI+C+I+ Sbjct: 1798 GIPTQMERLLSDNEALVKRLEMIPIECVIRN 1890 Score = 19.2 bits (38), Expect = 2.7, Method: Compositional matrix adjust. Identities = 13/31 (41%), Positives = 17/31 (54%) Frame = -2 Query: 84 TTINAIVGTEVLPNRNRPMTALPTLIRHTPG 114 TT +G L R+R +AL L RH+PG Sbjct: 3618 TTGAQDLGMRPLSCRDR*-SALQHLARHSPG 3529 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDC_ECOLI P0ACU7 HTH-type transcriptional regulator yjdC (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +3 Query: 98 CLFIAACT 105 C++I ACT Sbjct: 6705 CVYINACT 6728 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDF_ECOLI P39270 Inner membrane protein yjdF (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDI_ECOLI P0AF59 Uncharacterized protein yjdI (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.29, Method: Composition-based stats. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = +1 Query: 59 VVKVIDTCPSGA 70 VVK++DT P G Sbjct: 2932 VVKLVDTLP*GG 2967 Score = 15.0 bits (27), Expect = 3.5, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +2 Query: 15 GEKIDV 20 GE+ID+ Sbjct: 4673 GERIDI 4690 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDJ_ECOLI P39274 Uncharacterized protein yjdJ (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.8, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = +2 Query: 35 IEHTDVDE 42 IEH ++DE Sbjct: 4949 IEHLEIDE 4972 Score = 15.8 bits (29), Expect = 2.4, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +1 Query: 69 IPLCPFA 75 +PL PF+ Sbjct: 2305 VPLAPFS 2325 Score = 15.8 bits (29), Expect = 2.8, Method: Composition-based stats. Identities = 5/17 (29%), Positives = 11/17 (64%) Frame = +3 Query: 37 HTDVDESLKGQGIGKQL 53 HT+ + + + IGK++ Sbjct: 1806 HTNGTTAFRQRSIGKKI 1856 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDK_ECOLI P0AF61 Uncharacterized protein yjdK (98 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.4, Method: Composition-based stats. Identities = 4/10 (40%), Positives = 10/10 (100%) Frame = +2 Query: 82 FDLNIMTVDD 91 ++LN+MT+++ Sbjct: 4871 WELNVMTINE 4900 Score = 15.4 bits (28), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +2 Query: 3 GKNKFN 8 GKN+FN Sbjct: 3650 GKNQFN 3667 Score = 15.4 bits (28), Expect = 4.4, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = +1 Query: 79 DIDFDL 84 DIDFDL Sbjct: 3196 DIDFDL 3213 Score = 15.0 bits (27), Expect = 5.8, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 57 ITTSLAASEIE 67 + +SLA EIE Sbjct: 2428 LQSSLAMLEIE 2460 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDL_ECOLI P39276 Inner membrane transporter yjdL (485 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.7, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +2 Query: 451 MGEWTLACVAI 461 + W LAC+ I Sbjct: 2129 ISNWNLACLKI 2161 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDO_ECOLI P64646 Uncharacterized protein yjdO (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 14/29 (48%) Frame = -2 Query: 15 VNISFVIIWFISHEKTHIRLLSAFLVGIT 43 I+ +W + KT + S+ VGI+ Sbjct: 4218 CTITCFAVWVVMRSKTTDLIWSSI*VGIS 4132 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJDP_ECOLI Q6BEX5 Uncharacterized protein yjdP (Precursor) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEE_ECOLI P0AF67 UPF0079 ATP-binding protein yjeE (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.96 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.96, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 11/25 (44%) Frame = +3 Query: 3 NRVIPLPDEQATLDLGERVAKACDG 27 NR+ LP T G R K C G Sbjct: 6024 NRIDRLPCHYLTTRSGSRR*K*CQG 6098 Score = 17.3 bits (33), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +3 Query: 96 RDYFANDAICLVEW 109 RDYF+N C W Sbjct: 195 RDYFSN-GQCGSRW 233 Score = 17.3 bits (33), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 10/19 (52%) Frame = -3 Query: 100 ANDAICLVEWPQQGTGVLP 118 A+ A LVE Q VLP Sbjct: 6620 ASPAATLVERMQSSNEVLP 6564 Score = 16.5 bits (31), Expect = 3.5, Method: Composition-based stats. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = +2 Query: 133 REARVSAVSS 142 R ARV AVS+ Sbjct: 4634 RGARVQAVSN 4663 Score = 15.4 bits (28), Expect = 7.5, Method: Composition-based stats. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 84 LADPEELE 91 LAD EEL+ Sbjct: 5270 LADIEELD 5293 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEF_ECOLI P31806 Uncharacterized protein yjeF (515 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.66 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.66, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -3 Query: 396 HCAKRLVQRY 405 HCA+ LVQ Y Sbjct: 4835 HCAQSLVQNY 4806 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEH_ECOLI P39277 Inner membrane protein yjeH (418 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEI_ECOLI P0AF70 Uncharacterized protein yjeI (Precursor) (117 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 9.2, Method: Composition-based stats. Identities = 7/31 (22%), Positives = 12/31 (38%) Frame = +1 Query: 45 LIGTATGKQSNWLSGQHGEEGGSMRGAANDL 75 ++ A K W S H + + ND+ Sbjct: 1996 IVSEAYCKAFGWASEAHLAQMKKLSYQVNDV 2088 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEJ_ECOLI P39279 Uncharacterized protein yjeJ (289 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.8, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 14/27 (51%) Frame = +2 Query: 166 LYDVDCQDNGNLEYDTYSQPEWKHNLF 192 LY++ + G + + S+PE LF Sbjct: 4418 LYEIRPEARGPQLFISRSRPEMLIELF 4498 Score = 16.2 bits (30), Expect = 8.9, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 15/33 (45%) Frame = +2 Query: 101 NTLELTDNQGENLTFVLTLHDGSKCELVVNELQ 133 N+ + G+N+ V L + +NEL+ Sbjct: 4808 NSAQAIGRNGQNVRLVSQLSGWELNVMTINELK 4906 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEK_ECOLI P39280 Uncharacterized kamA family protein yjeK (342 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.0, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 15/31 (48%) Frame = +3 Query: 140 NKRNWQTALEYVAAHPELDEMIFSGGDPLMA 170 N+R WQ ++ A E+ + G D + A Sbjct: 3687 NRRKWQGIIK--AVDGEMIIVTVDGKDEVFA 3773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEM_ECOLI P39282 Inner membrane transporter yjeM (500 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 13/30 (43%) Frame = +2 Query: 138 AVAWMILVTVVASKGINKIARITAVGGIAV 167 A+ W L +A G+ R G IAV Sbjct: 1238 AIVWQRLPPALAKIGMTVTKRDRQQGNIAV 1327 Score = 18.1 bits (35), Expect = 3.9, Method: Compositional matrix adjust. Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 9/31 (29%) Frame = +3 Query: 137 LAVAWMILVTVVAS-----KGI----NKIAR 158 ++ W+IL TVVA KGI NK+ R Sbjct: 1401 ISCKWVILATVVACNSPILKGIH*INNKMMR 1493 Score = 16.9 bits (32), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -2 Query: 321 FLAYTGAFFTLCY 333 F A + FFT+C+ Sbjct: 6213 FTANSPRFFTICF 6175 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEN_ECOLI P39283 Uncharacterized protein yjeN (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.1, Method: Composition-based stats. Identities = 10/21 (47%), Positives = 12/21 (57%) Frame = +3 Query: 75 IRCLVFRGELVGYGDLFRMRY 95 I CLV LV ++F MRY Sbjct: 4368 ICCLVKTYALVTALEVFCMRY 4430 Score = 15.4 bits (28), Expect = 4.7, Method: Compositional matrix adjust. Identities = 4/17 (23%), Positives = 9/17 (52%) Frame = +3 Query: 23 GDVAEIEQTILSFVDAC 39 GD+ + +++AC Sbjct: 6675 GDLLRYTRACCVYINAC 6725 Score = 15.4 bits (28), Expect = 4.8, Method: Composition-based stats. Identities = 8/28 (28%), Positives = 11/28 (39%) Frame = -1 Query: 65 NLPDIYCAYLIRCLVFRGELVGYGDLFR 92 N P ++ L F Y +LFR Sbjct: 4282 NFPFLFTKLLNHYCSFSFAYFLYNNLFR 4199 Score = 15.0 bits (27), Expect = 5.1, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = -1 Query: 69 IYCAYLIRC 77 ++C LI+C Sbjct: 1540 LFCIILIQC 1514 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEO_ECOLI P39284 Inner membrane protein yjeO (104 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.5, Method: Composition-based stats. Identities = 3/19 (15%), Positives = 11/19 (57%) Frame = +2 Query: 15 VAFLWITITSALDKEWMID 33 + +W + + ++WM++ Sbjct: 1664 ILIIWCWSSVTIHQQWMVN 1720 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEP_ECOLI P39285 Uncharacterized mscS family protein yjeP (Precursor) (1107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.49, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 15/28 (53%) Frame = -3 Query: 973 AFITEQFINWSLSDSVTRVVLTIPAPAD 1000 I+ F N SLS+S + + IPA + Sbjct: 1868 GIISNLFTNASLSESSRSICVGIPAASS 1785 Score = 20.0 bits (40), Expect = 2.4, Method: Compositional matrix adjust. Identities = 10/29 (34%), Positives = 12/29 (41%) Frame = +2 Query: 935 RIGDTVTIRDLTGSVTKINTRATTISDWD 963 +IG TVT RD + DWD Sbjct: 1274 KIGMTVTKRDRQQGNIAVTYSPINSRDWD 1360 Score = 20.0 bits (40), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 585 HFGWPRERVS 594 H GWPR V+ Sbjct: 6814 HVGWPRSSVA 6785 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJES_ECOLI P39288 Putative electron transport protein yjeS (379 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.40, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -1 Query: 245 GCDDCQLICPWNRYSQLTTE 264 GCD L+ PW+ + L E Sbjct: 6124 GCDYGDLLQPWHHFHLLLPE 6065 Score = 19.6 bits (39), Expect = 0.98, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 10/18 (55%) Frame = -2 Query: 259 SQLTTEEDFSPRKPLHAP 276 S L T +PR P HAP Sbjct: 4668 SSLDTA*TRAPRIPTHAP 4615 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJET_ECOLI P0AF73 Uncharacterized protein yjeT (65 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJEV_ECOLI C1P621 Uncharacterized protein yjeV (17 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFC_ECOLI P33222 Uncharacterized protein yjfC (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFF_ECOLI P37772 Inner membrane ABC transporter permease protein yjfF (331 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 10/28 (35%) Frame = -2 Query: 79 VIGDFGLSPLLAFPLVLVMGCAFGAFMG 106 VIG F L P + C F F Sbjct: 6042 VIGQFDLFGYGFRPFTFIFCCHFTRFFS 5959 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFI_ECOLI P0AF76 Uncharacterized protein yjfI (133 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFJ_ECOLI P0AF78 Uncharacterized protein yjfJ (Precursor) (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 7.4, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 200 RDLDEKLAEAGI 211 RD+ KLA G+ Sbjct: 5195 RDMAFKLAACGV 5230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFK_ECOLI P39293 Uncharacterized protein yjfK (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.76 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.76, Method: Compositional matrix adjust. Identities = 16/71 (22%), Positives = 30/71 (42%), Gaps = 11/71 (15%) Frame = -2 Query: 101 YEESYGISKESHWREAINAKAMGAMTLNWQEKRWQRFFNSEEPGNIEPVYMLEKVE---- 156 Y +GIS W++ + + + TL W + F ++ + G+ ML+ ++ Sbjct: 6957 YVNKWGISSPLFWQDTV-LR*FCSKTL-WISVWFIYFVDNNDNGDFRCFSMLDGLDRLWH 6784 Query: 157 -------NQNH 160 NQNH Sbjct: 6783 DPIIGRNNQNH 6751 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = +1 Query: 50 GEEFTVAAVSHIDLGGGSQIFR 71 GE TVA +++ GSQ+ + Sbjct: 6289 GETVTVAELANKMAVKGSQVIK 6354 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFL_ECOLI P0AF80 UPF0719 inner membrane protein yjfL (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.19, Method: Compositional matrix adjust. Identities = 15/61 (24%), Positives = 29/61 (47%) Frame = -1 Query: 8 LAFSAYFFIGVAMVIIFLFIYSKITPHNEWQLIKNNNTAASLAFSGTLLGYVIPLSSAAI 67 L SA+ F A+ +YSK PH +W ++ + + LG++ L+++ + Sbjct: 2077 LDNSAFSFAPDALH*PSQRLYSK--PH*QWDRAADHFSKTAQIMGDLALGFL*SLTASPV 1904 Query: 68 N 68 N Sbjct: 1903 N 1901 Score = 17.3 bits (33), Expect = 1.5, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 17/37 (45%) Frame = -3 Query: 83 LVIQLLVFAGVRLYMPALSEKIINHNTAAGMFMGTAA 119 L + LL+F LY P+ N ++ +F ++ Sbjct: 530 LSLSLLIFVI*PLYFPS------NQDSKPALFKASST 438 Score = 14.6 bits (26), Expect = 9.6, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -3 Query: 61 PLSSAAINAVS 71 P+SSA AVS Sbjct: 6437 PISSATSCAVS 6405 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFM_ECOLI P39295 Uncharacterized protein yjfM (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 9/9 (100%) Frame = -1 Query: 130 VVSGFLLSR 138 VVSGF++++ Sbjct: 5170 VVSGFVITK 5144 Score = 16.2 bits (30), Expect = 6.7, Method: Compositional matrix adjust. Identities = 9/21 (42%), Positives = 11/21 (52%) Frame = +3 Query: 141 RKDRDEPFVYNSGGSSFASRP 161 R+ DE Y SGG +RP Sbjct: 6471 RRSTDE*SRYGSGG*ICFTRP 6533 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFN_ECOLI P0AF82 Uncharacterized protein yjfN (Precursor) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 29 ADCVTGLN 36 A C+TG N Sbjct: 637 AQCITGDN 660 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFO_ECOLI P39297 Uncharacterized lipoprotein yjfO (Precursor) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFP_ECOLI P39298 Esterase yjfP (3.1.-.-) (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.058 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.1 bits (48), Expect = 0.058, Method: Compositional matrix adjust. Identities = 13/32 (40%), Positives = 19/32 (59%) Frame = +1 Query: 154 LIPETAAQQNEFNNIVAPLAEWEATNHLEQLS 185 L+PET + + NI+ EAT +LE+LS Sbjct: 22 LLPETVVRLAQIPNIIGL---KEATGNLERLS 108 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFY_ECOLI P0AF86 Uncharacterized protein yjfY (Precursor) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.080 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.080, Method: Composition-based stats. Identities = 8/16 (50%), Positives = 9/16 (56%) Frame = -2 Query: 63 AQGATYYHVILMREPG 78 A G Y + LMR PG Sbjct: 4440 ASGRISYKIPLMRSPG 4393 Score = 13.9 bits (24), Expect = 9.9, Method: Composition-based stats. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = +1 Query: 67 TYYHVILMREP 77 T YH REP Sbjct: 847 TNYHSDAKREP 879 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJFZ_ECOLI P39308 Uncharacterized protein yjfZ (264 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.22 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.22, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 12/23 (52%) Frame = -1 Query: 4 PTTIYSFPAYLSRFSSTDKPVKL 26 P+T P +L RF + VKL Sbjct: 3727 PSTALMIPCHLRRFCIAIRNVKL 3659 Score = 16.9 bits (32), Expect = 5.2, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 7/14 (50%) Frame = +3 Query: 163 PNCWSSELPTIDLY 176 P C SSE P Y Sbjct: 6807 PTC*SSESPRCRCY 6848 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGA_ECOLI P0A8X0 UPF0307 protein yjgA (x96 protein) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 3.4, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 51 KNALDKIPL 59 KNAL +PL Sbjct: 2482 KNALYYVPL 2456 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGB_ECOLI P27250 Uncharacterized zinc-type alcohol dehydrogenase-like protein yjgB (1.-.-.-) (339 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 8/9 (88%) Frame = +2 Query: 257 NFHTVGAVL 265 N HT+GA+L Sbjct: 1577 NNHTIGAIL 1603 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +3 Query: 157 VFKPLLMH 164 V KP+LMH Sbjct: 600 VMKPILMH 623 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGD_ECOLI P0AF90 Uncharacterized protein yjgD (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.6, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = -3 Query: 70 DGDIVICCDILSECAL 85 +GD + DI ++C L Sbjct: 3506 NGDAIAVIDINTQCGL 3459 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGF_ECOLI P0AF93 UPF0076 protein yjgF (128 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGH_ECOLI P39332 UPF0076 protein yjgH (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGI_ECOLI P39333 Uncharacterized oxidoreductase yjgI (1.-.-.-) (237 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGJ_ECOLI P39334 Uncharacterized HTH-type transcriptional regulator yjgJ (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = +3 Query: 174 GHSIEQLCATAAMAGEAIK 192 GH + Q C T A ++ Sbjct: 843 GHKLPQ*CKTRASPSPIVR 899 Score = 16.9 bits (32), Expect = 3.1, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 11/22 (50%) Frame = -3 Query: 27 VLFHQKGFDAVSVAEVTDYLGI 48 V FH+ + V + YLG+ Sbjct: 4391 VCFHEAAYPPVQLFLRRYYLGL 4326 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGK_ECOLI P0AF96 Uncharacterized protein yjgK (150 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.39 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.39, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 7/47 (14%) Frame = -2 Query: 81 TFSTQPAGAPDTDWLADKDI-------AFLPEGVDEKTVILNEGDFV 120 TFS G T +A K I F+P+ ++ +GDF+ Sbjct: 2298 TFSNLLIGFYHTA*IATKAIFIHLF*RLFIPQATAIGGKLITQGDFI 2158 Score = 15.8 bits (29), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = -3 Query: 94 WLADKDIAFLPEGVD 108 WL + D+ P G + Sbjct: 3149 WLREPDLNQRPSGYE 3105 Score = 15.4 bits (28), Expect = 7.2, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 11/24 (45%) Frame = +1 Query: 13 LPQELRQAIEHIKAHVTAETPKGK 36 L Q+ HI+ AE +GK Sbjct: 1567 LSQK*SHYWSHIEMQKLAELYRGK 1638 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGL_ECOLI P39336 Uncharacterized protein yjgL (604 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.1, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 18/26 (69%) Frame = +2 Query: 313 ILEEIDKLYALNDHGIDNDKVGNNEI 338 ++E +DK+ + +++ + DK+G E+ Sbjct: 1106 LIEGLDKIRSNSNNAQNTDKIGRLEV 1183 Score = 16.9 bits (32), Expect = 10.0, Method: Compositional matrix adjust. Identities = 12/24 (50%), Positives = 14/24 (58%) Frame = -3 Query: 341 IKVNLSHILIDSLDDAKVNLTPVI 364 I N H IDSLDD + LT V+ Sbjct: 3752 IYSNDDHFSIDSLDDT-LPLTTVL 3684 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGM_ECOLI P39337 Uncharacterized N-acetyltransferase yjgM (2.3.1.-) (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.16, Method: Compositional matrix adjust. Identities = 9/36 (25%), Positives = 15/36 (41%) Frame = +1 Query: 124 CYLETTAFLKEAIALYEHLGFEHIDYALGCTGHVDC 159 C T EA + +H+G H++ G +D Sbjct: 6586 CIRSTKVAAGEAGGITQHIGAYHVETENGMVTFLDT 6693 Score = 20.0 bits (40), Expect = 0.35, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 17/35 (48%) Frame = -3 Query: 13 RLTLQDNPAIARVIRQVSAEYGLTADKGYTVADPN 47 RLT+++N A VIR + L ++ PN Sbjct: 2720 RLTIKNNVANIAVIRVIKLPEPLDPNRVEEAPAPN 2616 Score = 16.5 bits (31), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +3 Query: 135 AIALYEHLGFEH 146 IALY L +EH Sbjct: 1197 TIALYPDLLYEH 1232 Score = 15.0 bits (27), Expect = 9.7, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = +3 Query: 121 FKRCYLE 127 K+CYL+ Sbjct: 2904 LKKCYLQ 2924 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGN_ECOLI P39338 Inner membrane protein yjgN (398 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = -1 Query: 134 SFNCSMKGFWWVT 146 SFNC WVT Sbjct: 4591 SFNCDFST*RWVT 4553 Score = 16.5 bits (31), Expect = 10.0, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 259 SVYANDD 265 S+Y+NDD Sbjct: 3755 SIYSNDD 3735 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGR_ECOLI P39342 Uncharacterized protein yjgR (500 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGW_ECOLI Q9Z3A0 Putative uncharacterized protein yjgW (111 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.017 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.017, Method: Composition-based stats. Identities = 13/52 (25%), Positives = 24/52 (46%) Frame = +2 Query: 48 PLKNTCEMTGTDFSTDGLMRRYVTGGNNQWHTVASLHMTIMMNRIGTVADRQ 99 P++ + G+ + + + + N Q T+ S T+M N +ADRQ Sbjct: 743 PIQPLVLLKGSRIESTADISKLLLDNNRQNDTLWSQITTVMQNESLPIADRQ 898 Score = 15.4 bits (28), Expect = 4.2, Method: Composition-based stats. Identities = 5/15 (33%), Positives = 7/15 (46%) Frame = +3 Query: 30 FVCQRIEWRYIFSTN 44 F C + W+ TN Sbjct: 5589 FKCSELRWKK*IGTN 5633 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGX_ECOLI P39349 Putative phosphoethanolamine transferase yjgX (2.7.-.-) (371 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.42, Method: Compositional matrix adjust. Identities = 13/39 (33%), Positives = 20/39 (51%) Frame = +2 Query: 11 FLVSAAILVFVVIFWRTHHRDHRNWLALRLFVLCSVNRW 49 FL +L+FV + H++ NWL +L S+ RW Sbjct: 2834 FLSDRLVLIFV-----SEHKEILNWL**SKKMLSSIPRW 2935 Score = 17.7 bits (34), Expect = 4.3, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 2/22 (9%) Frame = -1 Query: 225 DTSSPKII--FLHMMGSHPNPC 244 +T SP+++ L+ HPN C Sbjct: 4684 NTFSPQLVRHSLNTCSPHPNTC 4619 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -3 Query: 146 LIYDYEQNPDSGNNVVA 162 +IY Y+Q SGN ++ Sbjct: 809 IIY*YQQWTLSGNPLIV 759 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJGZ_ECOLI P39351 Uncharacterized protein yjgZ (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHB_ECOLI P39352 Putative metabolite transport protein yjhB (405 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 11/19 (57%) Frame = +3 Query: 92 VGTGLSGIATNLYMLAVCR 110 +GT + TNL+ A CR Sbjct: 5622 IGTN*NS*KTNLHQYA*CR 5678 Score = 18.1 bits (35), Expect = 3.8, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 11/24 (45%) Frame = -1 Query: 320 NLGIAGLVPKFIYDYFPTKLRGLG 343 N + L P F+ ++PT G Sbjct: 2257 NCHESDLYPSFLTSFYPTSDSHRG 2186 Score = 17.3 bits (33), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 13/22 (59%) Frame = +2 Query: 180 LLVLWIRKSAPESQEWIEDKYK 201 +L++W S Q+W+ + +K Sbjct: 1664 ILIIWCWSSVTIHQQWMVNVFK 1729 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 333 DYFPTKLRGL 342 DY +LRGL Sbjct: 3563 DYLSLQLRGL 3592 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHC_ECOLI P39353 Uncharacterized oxidoreductase yjhC (1.-.-.-) (372 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHD_ECOLI P39354 Putative uncharacterized protein yjhD (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.3, Method: Composition-based stats. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -1 Query: 54 IKVAMLKPEPPR 65 +KVA L PPR Sbjct: 2962 LKVACLPISPPR 2927 Score = 15.0 bits (27), Expect = 4.1, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 6/12 (50%) Frame = -2 Query: 14 IYFSQYWAKGDF 25 IYF GDF Sbjct: 6861 IYFVDNNDNGDF 6826 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHE_ECOLI P39355 Putative uncharacterized protein yjhE (82 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHF_ECOLI P39357 Uncharacterized permease yjhF (449 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 14/26 (53%) Frame = -1 Query: 351 WGVAAFLRICLGSATVAAISTAGLVI 376 WG LRI L + T + ST ++I Sbjct: 3808 WGARFALRILLSANTSSFPSTVTMII 3731 Score = 18.1 bits (35), Expect = 4.2, Method: Compositional matrix adjust. Identities = 13/34 (38%), Positives = 16/34 (47%) Frame = -3 Query: 121 LVPILFAIAREAKISPMFMCVPMLSGLLVAHGFL 154 L ILFA + +SPM + S L A G L Sbjct: 6335 LTAILFASSATVTVSPM-----ITSRLTTATGLL 6249 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHG_ECOLI P39358 Uncharacterized protein yjhG (4.-.-.-) (655 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHH_ECOLI P39359 Uncharacterized protein yjhH (301 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 45 2e-08 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 45.1 bits (105), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 31/79 (39%), Positives = 43/79 (54%) Frame = +1 Query: 138 PDLTGQDLTPETVTRLALQNENIVGIKDTIDSVGHLRTMINTVKSVRPSFSVFCGYDDHL 197 P TG DL PETV RLA Q NI+G+K ++ G+L + SV +F + G D Sbjct: 1 PSRTGCDLLPETVVRLA-QIPNIIGLK---EATGNLERLSMIKPSVGDNFILLSGDDATG 168 Query: 198 LNTMLLGGDGAITASANFA 216 + + GG G I+ +AN A Sbjct: 169 FDFIQKGGQGIISVTANVA 225 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 12/19 (63%) Frame = +2 Query: 37 GVDGLFYLGTGGEFSQMNT 55 G+ G F+L GGEF + T Sbjct: 3323 GL*GPFFLCLGGEFVHVGT 3379 Score = 17.7 bits (34), Expect = 2.8, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 185 PSFSVFC 191 PSF VFC Sbjct: 3284 PSFGVFC 3304 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHI_ECOLI P39360 Uncharacterized HTH-type transcriptional regulator yjhI (262 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHP_ECOLI P39367 Uncharacterized protein yjhP (248 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -3 Query: 45 SGSGEMLCTWARDHGITGTG 64 SG + L TW D + GTG Sbjct: 3626 SGKQQALKTWG*DL*VVGTG 3567 Score = 15.8 bits (29), Expect = 10.0, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +1 Query: 14 HRIHNPF 20 HRI NP+ Sbjct: 4123 HRI*NPY 4143 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHQ_ECOLI P39368 Uncharacterized N-acetyltransferase yjhQ (2.3.1.-) (181 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHR_ECOLI P39369 Putative uncharacterized protein yjhR (338 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 16/85 (18%), Positives = 42/85 (49%), Gaps = 5/85 (5%) Frame = +2 Query: 139 IEMQPAFSPRGLL--AKYLFSSDNNALQFEFQKRQDLISAHTQISTLHGVEQHDEFLNKT 196 ++++P P LL ++ ++D + L + ++ D + +QI+T+ N++ Sbjct: 728 LDIRPPIQPLVLLKGSRIESTADISKLLLDNNRQNDTL--WSQITTV--------MQNES 877 Query: 197 LAGAQKK---ITIISPWLSWQKVEQ 218 L A ++ T+ + W+ W + ++ Sbjct: 878 LPIADRQDANQTLTTDWIKWNRADE 952 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHS_ECOLI P39370 Uncharacterized protein yjhS (Precursor) (326 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.19 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.19, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = +2 Query: 14 TVAGQSNAMAYGEGLPLPDREDA 36 T+ Q + E LP+ DR+DA Sbjct: 836 TLWSQITTVMQNESLPIADRQDA 904 Score = 19.2 bits (38), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/16 (50%), Positives = 11/16 (68%), Gaps = 1/16 (6%) Frame = -2 Query: 145 RWGTDTPLY-QDLVSR 159 +WG +PL+ QD V R Sbjct: 6948 KWGISSPLFWQDTVLR 6901 Score = 17.7 bits (34), Expect = 3.3, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 10/20 (50%), Gaps = 2/20 (10%) Frame = -2 Query: 104 LPFIP--DNAGILIVPCCRG 121 LP P D I VPCC G Sbjct: 723 LPTAPCCDTCAIS*VPCCNG 664 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHU_ECOLI P39356 Uncharacterized transcriptional regulator yjhU (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.58 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.58, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 14/24 (58%) Frame = +3 Query: 240 MQTYRDLGAVGVICGRFYDKEGMP 263 ++TY + A+ V C R+ K +P Sbjct: 4380 VKTYALVTALEVFCMRYVLKHEVP 4451 Score = 18.1 bits (35), Expect = 2.5, Method: Compositional matrix adjust. Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 10/89 (11%) Frame = +1 Query: 195 MELQAEPIIRSN-FDVLTRCTKAFFVVGNALDENPLIRVGVLNKKEMQ-TYRDLGAVGVI 252 M L E I +N V C + + L P+ + ++N+K ++ + G + + Sbjct: 304 MPLHKELFIEANPIAVKWACKRLGLITAETL-RLPMTSLTLVNQKRVEDALKSAGLLS*L 480 Query: 253 CGRFY--------DKEGMPVVADVDQRIL 273 G++ DK+ VADV R+ Sbjct: 481 LGKYNGYITKISNDKDNKRFVADVVSRLF 567 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJHX_ECOLI Q2EEU2 UPF0386 protein yjhX (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 8.4, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 5/8 (62%) Frame = -1 Query: 29 RVTSVECY 36 R+T CY Sbjct: 4813 RITFFNCY 4790 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIA_ECOLI P24203 Uncharacterized GTP-binding protein yjiA (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +3 Query: 115 EVLCQRYLLD 124 EV C RY+L Sbjct: 4410 EVFCMRYVLK 4439 Score = 17.7 bits (34), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/26 (23%), Positives = 14/26 (53%) Frame = +2 Query: 20 LLRHILNEQHGYKIAVIENEFGEVSV 45 + R + + + YK+ +ENE + + Sbjct: 5594 MFRAPVEKVNRYKLKFVENELTSIRL 5671 Score = 16.9 bits (32), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 14/30 (46%) Frame = -1 Query: 107 IIQTFFSHEVLCQRYLLDGVIALVDAVHAD 136 I +TFF C +Y+L + L+ + Sbjct: 5152 ITKTFFFF*SQCGQYILGTITQLLKPLFVK 5063 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 90 QFDRLVIECTGMA 102 FD+ + CTG + Sbjct: 4957 MFDKHINRCTGFS 4919 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 11/35 (31%), Positives = 15/35 (42%) Frame = -2 Query: 204 EENVVSTKPRFHFIADKQNDISSIVVELDYPVDIS 238 EEN STK H + IS + + V +S Sbjct: 5010 EENSASTKTVAH-----SSSISRCSINISIAVRVS 4921 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +1 Query: 258 YKGMLWIDGE 267 Y+GM W G Sbjct: 4612 YRGMCWDAGS 4641 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIC_ECOLI P39374 Uncharacterized protein yjiC (276 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 24 0.028 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.3 bits (51), Expect = 0.028, Method: Compositional matrix adjust. Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 1/63 (1%) Frame = +1 Query: 186 DIYIDQIMTVTGVANSSGFXXXXXXXXXIELGNDPIIGIEAYPGTAEIHAK-MGYKVIPG 244 D+ I + +TV +AN ++LG I TA++ A+ MG+KVI Sbjct: 6277 DVIIGETVTVAELANKMAVKGSQVIKTMMKLGGMATINQVIDQETAQLVAEEMGHKVILR 6456 Query: 245 DEN 247 EN Sbjct: 6457 REN 6465 Score = 19.2 bits (38), Expect = 0.94, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 11/14 (78%) Frame = -2 Query: 8 ALQSQIITDAHFLH 21 A Q++IIT+A F H Sbjct: 150 AQQNKIITNAGFYH 109 Score = 15.8 bits (29), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -2 Query: 215 ELGNDPIIG 223 L +DPIIG Sbjct: 6795 RLWHDPIIG 6769 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIE_ECOLI P39376 Uncharacterized HTH-type transcriptional regulator yjiE (303 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +1 Query: 207 GRLINRTLTRHSEL 220 GRL R + H EL Sbjct: 283 GRLNERLMPLHKEL 324 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIG_ECOLI P0AEH8 Inner membrane protein yjiG (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +3 Query: 127 NAKYYPHIITVCVINAL 143 NAK P +C+ N L Sbjct: 4911 NAKLKPVQRLICLSNIL 4961 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIH_ECOLI P39379 Uncharacterized protein yjiH (227 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.43, Method: Compositional matrix adjust. Identities = 12/40 (30%), Positives = 19/40 (47%) Frame = +2 Query: 173 ITNYFSSGVAVFAFLGTSVIVPLAVILVFKFVGANILRVW 212 IT+Y S + S +PL+V L K + + R+W Sbjct: 1946 ITHYLSCF*KMI-----SCTIPLSVRLTVKPLAGLVKRIW 2050 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIJ_ECOLI P39381 Uncharacterized protein yjiJ (392 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIK_ECOLI P39382 Uncharacterized protein yjiK (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIL_ECOLI P39383 Uncharacterized protein yjiL (255 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIM_ECOLI P39384 Uncharacterized protein yjiM (383 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.67, Method: Compositional matrix adjust. Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 1/54 (1%) Frame = +1 Query: 117 YMAEFKPVHVMQLPNSVKDDASR-ALWKAEMLRLQKTVEERFGHEISEDALRDA 169 M K + + P +VK R L AE LRL T + EDAL+ A Sbjct: 301 LMPLHKELFIEANPIAVKWACKRLGLITAETLRLPMTSLTLVNQKRVEDALKSA 462 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIN_ECOLI P39385 Uncharacterized protein yjiN (426 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.59 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.59, Method: Compositional matrix adjust. Identities = 10/26 (38%), Positives = 14/26 (53%) Frame = +1 Query: 224 ILPTEWLGEHSAELVSDAVNSLLDDI 249 ILP EW G+ VS + +DD+ Sbjct: 6913 ILPEEWGGDSPFVHVSAKKGTGIDDL 6990 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIP_ECOLI P39387 Putative uncharacterized protein yjiP (306 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.026 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 24.6 bits (52), Expect = 0.026, Method: Compositional matrix adjust. Identities = 13/49 (26%), Positives = 25/49 (51%) Frame = +1 Query: 215 NYILLTGDEARFNEFISELTRRMPQHRERIMTIAERIHNDGYIKGEQRI 263 N+ILL+GD+A +FI + + I+++ + G + QR+ Sbjct: 133 NFILLSGDDATGFDFIQ-------KGGQGIISVTANVAAGGMTELCQRV 258 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIR_ECOLI P39389 Uncharacterized HTH-type transcriptional regulator yjiR (470 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.18, Method: Compositional matrix adjust. Identities = 14/44 (31%), Positives = 22/44 (50%) Frame = +1 Query: 326 PGRYHDKLMHMKYAISSFNVPSTQMAAATFVLEGHYHRHIRRMR 369 PG+ +KL + S+ NVPS+ + + +E IRR R Sbjct: 5539 PGQVPNKLTLQRKIRSTLNVPSSGGKSKSVQIE------IRRKR 5652 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIS_ECOLI P39390 Uncharacterized protein yjiS (54 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.0, Method: Composition-based stats. Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 1/20 (5%) Frame = -1 Query: 4 HENRAKAPFIGLVQLW-QAV 22 H NR+ I V+LW QA+ Sbjct: 6046 HGNRS----IRFVRLWVQAI 5999 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIT_ECOLI P39391 Putative uncharacterized protein yjiT (521 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 6/25 (24%) Frame = +3 Query: 32 LSNFVNLRG------LRQPDGRPLY 50 LSNFVN +G L++ R LY Sbjct: 4251 LSNFVNKKGKLLQLPLKKSVERALY 4325 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIV_ECOLI P39393 Putative uncharacterized protein yjiV (906 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIX_ECOLI P0ADC8 Uncharacterized protein yjiX (67 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 3.6, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -1 Query: 32 MKTNHPDKPYMSY 44 +K HP PY + Sbjct: 6526 VKQIHPPLPYRDH 6488 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJIY_ECOLI P39396 Inner membrane protein yjiY (716 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJA_ECOLI P18390 Uncharacterized protein yjjA (Protein P-18) (Precursor) (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +3 Query: 122 QGLLKTKDGQQL 133 QG++K DG+ + Sbjct: 3702 QGIIKAVDGEMI 3737 Score = 16.2 bits (30), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -2 Query: 145 EKVKTKACDL 154 E + TKAC L Sbjct: 2403 EWILTKACSL 2374 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJB_ECOLI P0ADD2 UPF0442 protein yjjB (Protein P-14) (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJG_ECOLI P0A8Y1 5'-nucleotidase yjjG (3.1.3.5) (Nucleoside 5'-monophosphate phosphohydrolase) (225 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.009 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.4 bits (54), Expect = 0.009, Method: Compositional matrix adjust. Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%) Frame = +3 Query: 19 SFTGLQRMFLDYSVTFTAEDFQDY--QAVNKPLWVDYQN 55 S GL+R+ FTAED+ DY + +N L + QN Sbjct: 3591 SSPGLERLL------FTAEDYTDYLGERINLTLRIAMQN 3689 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJI_ECOLI P37342 Uncharacterized protein yjjI (516 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.029 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.4 bits (54), Expect = 0.029, Method: Compositional matrix adjust. Identities = 14/42 (33%), Positives = 18/42 (42%) Frame = -3 Query: 305 EGLINPERFVPMFGMYGLAEAVNLLCEKEGIAARYGKEAAAN 346 +INP R GLA N LC GI + + A+ N Sbjct: 389 SAVINPSRLQAHLTAIGLASINNSLC--SGIKRSFKRPASVN 270 Score = 21.9 bits (45), Expect = 0.29, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 14/18 (77%) Frame = -3 Query: 16 IVTSPVLSPEQKRHFLAL 33 +V +PV+SP ++ FLA+ Sbjct: 1043 VVVNPVISPLKQADFLAV 990 Score = 20.8 bits (42), Expect = 0.63, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -1 Query: 268 FTRTLPHYCQQQIA 281 FT+ L HYC A Sbjct: 4267 FTKLLNHYCSFSFA 4226 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 10/21 (47%), Positives = 13/21 (61%) Frame = +1 Query: 228 KGGYGIVSCYNSLPLAGGGST 248 KGG GI+S + +A GG T Sbjct: 184 KGGQGIISVTAN--VAAGGMT 240 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 9/9 (100%) Frame = -1 Query: 68 KPRYVLPDY 76 KPRY+LP++ Sbjct: 6757 KPRYLLPEH 6731 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJJ_ECOLI P39410 Uncharacterized protein yjjJ (443 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = -1 Query: 93 ADGDEQWFDGLPWYLTDLRPQ 113 +D FDG+ Y LRP Sbjct: 2779 SDFPTHCFDGVACYSYYLRPD 2717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJK_ECOLI P0A9W3 Uncharacterized ABC transporter ATP-binding protein yjjK (555 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.4, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 15/29 (51%) Frame = +2 Query: 228 WILELDRGEGIPWEGNYSSWLEQKDQRLA 256 WI E +P+ G Y ++Q+ +LA Sbjct: 926 WIKWNRADEDVPFAGRYQISVQQQGNQLA 1012 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJL_ECOLI P39398 Inner membrane transport protein yjjL (453 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.5, Method: Compositional matrix adjust. Identities = 12/26 (46%), Positives = 14/26 (53%) Frame = -3 Query: 383 AVASRMTASVGSIQNFASFICASFAP 408 AV RMT S+G I N F AS + Sbjct: 1898 AVRLRMTHSIGIISNL--FTNASLSE 1827 Score = 17.3 bits (33), Expect = 6.6, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = -2 Query: 117 WSLFQAMSGMVHNFTQFVLVR 137 W L +A S NFT + +R Sbjct: 2400 WILTKACSLCKRNFTLNLFIR 2338 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJM_ECOLI P39399 Uncharacterized protein yjjM (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.12, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = -3 Query: 12 INQVIDDMARGHIPS 26 +N + M GH+PS Sbjct: 6035 VNSICSAMGSGHLPS 5991 Score = 18.1 bits (35), Expect = 2.4, Method: Compositional matrix adjust. Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 2/51 (3%) Frame = +1 Query: 179 PDHDPRWLQAKTM--LERHRLLRDNIGNSFRMFSQLDRDFHSLLLSAADNI 227 PD W KT+ +++ R R N+G + Q+ + L +DN+ Sbjct: 2188 PDGCRLW-DKKTLEKMDKDRF-RGNLGGVIEAYEQVAKRIGVPLAPFSDNV 2334 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 12/19 (63%) Frame = -2 Query: 28 LPSQSALAEMYNISRTTVR 46 LPS +A+ ++ S TT+ Sbjct: 4809 LPSSTAMFIVFASSSTTIE 4753 Score = 16.5 bits (31), Expect = 7.3, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 12/25 (48%) Frame = +1 Query: 167 LETHSLQHFLNLPDHDPRWLQAKTM 191 +E H+ +HFL DP TM Sbjct: 2455 IEAHNKEHFLC---GDPIGRIGTTM 2520 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJN_ECOLI P39400 Uncharacterized zinc-type alcohol dehydrogenase-like protein yjjN (1.-.-.-) (337 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.52, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 44 WGGNQPFF 51 WGG+ PF Sbjct: 6928 WGGDSPFV 6951 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 9/17 (52%) Frame = -2 Query: 41 IHAWGGNQPFFSYPRVL 57 ++ WG + P F VL Sbjct: 6954 VNKWGISSPLFWQDTVL 6904 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJP_ECOLI P0ADD5 Inner membrane protein yjjP (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = +1 Query: 238 ATCVGVVMALTIWG 251 A C+ + + LTIWG Sbjct: 3610 ACCLPLKIILTIWG 3651 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -2 Query: 81 VVTEVQHIVI 90 +VTE+QH +I Sbjct: 1698 IVTELQHQII 1669 Score = 16.5 bits (31), Expect = 5.7, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -2 Query: 124 GLSCACF 130 +SC+CF Sbjct: 3969 SISCSCF 3949 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJQ_ECOLI P0ADD7 Uncharacterized protein yjjQ (241 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 4/20 (20%), Positives = 11/20 (55%) Frame = -3 Query: 49 LRRSGLVIADLAGESEDPRS 68 +++ GL+ ++ PR+ Sbjct: 3347 IKKKGLIAQSFFSNNKKPRN 3288 Score = 15.8 bits (29), Expect = 8.9, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 6/10 (60%) Frame = +3 Query: 84 HWVFMVSRSW 93 HWV+ + W Sbjct: 1026 HWVYNNKKKW 1055 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJU_ECOLI P39407 Uncharacterized protein yjjU (3.1.1.-) (357 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.55, Method: Compositional matrix adjust. Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 4/40 (10%) Frame = +3 Query: 24 RIALVCEGGGQRGIFTAGVLDE----FMRAQFNPFDLYLG 59 RIA G R I++ +L+ + R ++P+D Y+G Sbjct: 2577 RIATR*RCGYGRFIWSGCLLNSVWI*WFRQLYDPYDRYIG 2696 Score = 20.0 bits (40), Expect = 0.78, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = -2 Query: 290 GRLCGRYFLATVGKLLTE 307 R C R+F + KLL E Sbjct: 5493 NRACFRFF*TCISKLLYE 5440 Score = 18.9 bits (37), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/29 (24%), Positives = 12/29 (41%) Frame = -3 Query: 144 YAPNYFLPTKQNWLDVIRASSAIPGFYRS 172 + F L + SSA+ GF+ + Sbjct: 5816 FVSAIFFALASFALSLFACSSALAGFFST 5730 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJV_ECOLI P39408 Uncharacterized deoxyribonuclease yjjV (3.1.21.-) (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 16/31 (51%) Frame = +1 Query: 76 VSLEQLQQALERRPAKVVAVGEIGLDLFGDD 106 + L++ LER +VG+ + L GDD Sbjct: 67 IGLKEATGNLERLSMIKPSVGDNFILLSGDD 159 Score = 16.2 bits (30), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +2 Query: 92 VVAVGEIGL 100 VVA GE+ L Sbjct: 6113 VVAAGEVKL 6139 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJW_ECOLI P39409 Uncharacterized protein yjjW (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 9/20 (45%), Positives = 11/20 (55%) Frame = -2 Query: 111 LFIEGITVSGGEATTQLPFV 130 LFI T GG+ TQ F+ Sbjct: 2217 LFIPQATAIGGKLITQGDFI 2158 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 7/18 (38%) Frame = +1 Query: 166 PVCDGAMLDLKAWGSECH 183 P+ A W SE H Sbjct: 1993 PIVSEAYCKAFGWASEAH 2046 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJX_ECOLI P39411 UPF0244 protein yjjX (170 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.4, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 7/15 (46%) Frame = +1 Query: 34 SVAVESGVPEQPFGS 48 VA GVP PF Sbjct: 2284 QVAKRIGVPLAPFSD 2328 Score = 15.8 bits (29), Expect = 6.4, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = -3 Query: 89 VIENASQRGEARSATLPLPA 108 + NAS +RS + +PA Sbjct: 1853 LFTNASLSESSRSICVGIPA 1794 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJY_ECOLI P0ADD9 Uncharacterized protein yjjY (46 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.18 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.18, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 11/18 (61%) Frame = -2 Query: 29 QDPTVSKTAVILTILTAT 46 Q VSK+ V +ILT T Sbjct: 4023 QRRKVSKSPVFRSILTRT 3970 Score = 14.6 bits (26), Expect = 2.4, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -1 Query: 6 NCVLDALSINVNN 18 NC + + VNN Sbjct: 4798 NCYVHRFCVFVNN 4760 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YJJZ_ECOLI P55914 Uncharacterized protein yjjZ (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.2, Method: Composition-based stats. Identities = 5/13 (38%), Positives = 8/13 (61%) Frame = -1 Query: 52 LRHYILLPSCLAL 64 + HY L +CL + Sbjct: 2977 IEHYHLKVACLPI 2939 Score = 14.6 bits (26), Expect = 5.1, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -2 Query: 20 AGLMYADLSS 29 AGL+ LSS Sbjct: 5163 AGLLSPKLSS 5134 Score = 14.6 bits (26), Expect = 5.3, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 57 LLPSCLALIAGIML 70 ++PS L + IML Sbjct: 4356 IIPSALLPRSNIML 4315 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFA_ECOLI P75678 Uncharacterized protein ykfA (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 32 2e-04 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 31.6 bits (70), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 19/90 (21%), Positives = 41/90 (45%) Frame = +1 Query: 37 PVIGIMGKTGVGKSSLCNALFAGDISPVSDVAACTREPLRFRLQVGDRYITLMDLPGVGE 96 PV+ IMG GK+SL + + + ++ + T+ + ++ + +T +D PG Sbjct: 6532 PVVTIMGHVDHGKTSLLDCIRSTKVA-AGEAGGITQHIGAYHVETENGMVTFLDTPG--- 6699 Query: 97 SGARDTEYAALYREQLPRLDLVLWLIKADD 126 + ++ D+V+ ++ ADD Sbjct: 6700 ----HAAFTSMRARGAQATDIVVLVVAADD 6777 Score = 19.6 bits (39), Expect = 0.70, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 15/33 (45%) Frame = -1 Query: 53 CNALFAGDISPVSDVAACTREPLRFRLQVGDRY 85 C ALF + CT L F L++ DR+ Sbjct: 4984 CGALFINFKMFDKHINRCTGFSLAFFLKLVDRH 4886 Score = 18.9 bits (37), Expect = 1.4, Method: Compositional matrix adjust. Identities = 10/37 (27%), Positives = 17/37 (45%) Frame = +1 Query: 143 VYRHKVLFVISQSDKAEPTSGGGQLSTAQKQNISRKI 179 + K L QSDK + +L + ++ + RKI Sbjct: 5827 IVEKKKLTTQQQSDKTRREAEAAELKRSVEREVRRKI 5937 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +2 Query: 114 RLDLVLW 120 R+D+VLW Sbjct: 4679 RIDIVLW 4699 Score = 16.9 bits (32), Expect = 5.0, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = -2 Query: 253 SISAFPLIPA 262 SIS+ P+IP+ Sbjct: 4374 SISSCPIIPS 4345 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFB_ECOLI P77162 Uncharacterized protein ykfB (Precursor) (155 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFC_ECOLI Q47688 Putative uncharacterized protein ykfC (376 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 12/16 (75%) Frame = +2 Query: 296 REECRGVLEGSLKLRL 311 R+ CRG+L + +++L Sbjct: 3227 RKSCRGILSAANRVQL 3274 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = -2 Query: 127 YGFRP 131 YGFRP Sbjct: 6015 YGFRP 6001 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFF_ECOLI P75677 UPF0401 protein ykfF (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFG_ECOLI Q47685 Putative radC-like protein ykfG (158 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.5, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 23 LRALDRHLHEPGVA 36 L LDR H+P + Sbjct: 6810 LDGLDRLWHDPIIG 6769 Score = 16.9 bits (32), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/33 (24%), Positives = 16/33 (48%) Frame = +1 Query: 29 HLHEPGVAFTSTHAVREWLRLHMAALEREEFRV 61 LH+P V+ A H+A +++ ++V Sbjct: 1981 QLHDPIVSEAYCKAFGWASEAHLAQMKKLSYQV 2079 Score = 15.0 bits (27), Expect = 8.6, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 10/26 (38%) Frame = -3 Query: 18 LIQRALRALDRHLHEPGVAFTSTHAV 43 L+ L RHL + HAV Sbjct: 746 LVAECLTVCQRHLAVILAQYRKFHAV 669 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFH_ECOLI Q9XB42 Uncharacterized protein ykfH (73 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.70 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.70, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -1 Query: 32 HGSVCHY 38 HG CH+ Sbjct: 5881 HGGSCHF 5861 Score = 14.6 bits (26), Expect = 5.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -2 Query: 34 SVCHYTGRDV 43 S+ Y GRD+ Sbjct: 3021 SMNWYRGRDL 2992 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFI_ECOLI P77692 Uncharacterized protein ykfI (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFJ_ECOLI P75675 Putative uncharacterized protein ykfJ (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKFM_ECOLI A5A605 Uncharacterized protein ykfM (159 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 11/18 (61%) Frame = -3 Query: 18 ILFFPAFNASLFFTGVKP 35 ILF N+SL T +KP Sbjct: 2165 ILFSNKPNSSLKSTRIKP 2112 Score = 17.7 bits (34), Expect = 1.7, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 10/19 (52%) Frame = -1 Query: 33 VKPLYSIIKCSTEIFYDWR 51 +K YS+I+C + R Sbjct: 2356 LKSFYSLIRCQKRALTEPR 2300 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGA_ECOLI P77601 Putative HTH-type transcriptional regulator ykgA (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.6, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -1 Query: 121 DLANIFPSFLIRQQ 134 D ++FP LIR+Q Sbjct: 6988 DHQSLFPF*LIREQ 6947 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGB_ECOLI P75685 Inner membrane protein ykgB (197 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -2 Query: 49 NSPLMSFFYE 58 N+PL SF Y+ Sbjct: 204 NNPLPSFLYK 175 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGC_ECOLI P77212 Probable pyridine nucleotide-disulfide oxidoreductase ykgC (441 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 8.5, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = -3 Query: 421 DQIFTHPSMSES 432 +FT+ S+SES Sbjct: 1859 SNLFTNASLSES 1824 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGD_ECOLI P77379 Uncharacterized HTH-type transcriptional regulator ykgD (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.83 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.83, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 11/13 (84%) Frame = +3 Query: 172 SLLLHPRLGAVIQ 184 ++LH RLGA+++ Sbjct: 4803 KVILHKRLGAMVK 4841 Score = 18.1 bits (35), Expect = 2.0, Method: Compositional matrix adjust. Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 5/44 (11%) Frame = +1 Query: 21 CVLGSD-----WQLPHGAGELSVIRWHALTQGAAKLEMPTGEIF 59 C+ G + W L + A + RW + A + T + F Sbjct: 643 CITGDNPAITAWNLRYCASITARCRWQTVRHSATNSTLGTIKGF 774 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGE_ECOLI P77252 Uncharacterized protein ykgE (239 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 8.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = +2 Query: 149 EPLTLLKNVR 158 +PL LLK R Sbjct: 749 QPLVLLKGSR 778 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGF_ECOLI P77536 Uncharacterized electron transport protein ykgF (475 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGG_ECOLI P77433 Uncharacterized protein ykgG (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.43, Method: Compositional matrix adjust. Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 4/62 (6%) Frame = +2 Query: 10 NVAQALGR---PLRLEPQAEDAPLNNYANERLTQLNQ-QQRCDAFIQFASDVMLTRCELT 65 N AQA+GR +RL Q LN + +N+ +++C A + A D+ + E+ Sbjct: 4808 NSAQAIGRNGQNVRLVSQLSGWELN------VMTINELKEKCQAETRTAIDMFIEHLEID 4969 Query: 66 SE 67 E Sbjct: 4970 EE 4975 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = +1 Query: 81 LGDQSVVISGD 91 +GD +++SGD Sbjct: 124 VGDNFILLSGD 156 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 9/27 (33%), Positives = 12/27 (44%) Frame = -2 Query: 170 STILPRVAQLAEKLHQKAQAGERMPSC 196 S +LPR + +L A PSC Sbjct: 4347 SALLPRSNIMLSRLTFLTVAVTIFPSC 4267 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGH_ECOLI P77180 Uncharacterized protein ykgH (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.85, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = -3 Query: 200 IVISVMFCLVKKMVDEYQQNS 220 +V SVM L ++ Y+Q S Sbjct: 5399 MVTSVMLFLPATVITHYRQTS 5337 Score = 16.5 bits (31), Expect = 4.4, Method: Compositional matrix adjust. Identities = 10/17 (58%), Positives = 11/17 (64%) Frame = -2 Query: 4 QIKQDIDLIEILFYLKK 20 QIK DI L + YLKK Sbjct: 3213 QIKIDISLSL*ISYLKK 3163 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 12/24 (50%) Frame = -1 Query: 184 NKYPAAICLALGFFLSIVISVMFC 207 N P +C F + +ISV FC Sbjct: 3445 NSTPTNLC-PKAFTGAEIISVNFC 3377 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +2 Query: 205 MFCLVKKMVD 214 +FC +KKM Sbjct: 3296 VFCYLKKMTG 3325 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGI_ECOLI P75687 Uncharacterized protein ykgI (Precursor) (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGJ_ECOLI P0AAL9 Uncharacterized protein ykgJ (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/6 (100%), Positives = 6/6 (100%) Frame = -2 Query: 16 FFRVSF 21 FFRVSF Sbjct: 5802 FFRVSF 5785 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGL_ECOLI P56257 Uncharacterized protein ykgL (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGN_ECOLI Q79E92 Putative transposase ykgN (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 8 EEFKTEAVKQV 18 E+ KTE KQV Sbjct: 5692 EKAKTEQAKQV 5724 Score = 15.8 bits (29), Expect = 4.0, Method: Composition-based stats. Identities = 3/5 (60%), Positives = 5/5 (100%) Frame = -3 Query: 42 WIKKY 46 W+K+Y Sbjct: 1214 WVKRY 1200 Score = 14.6 bits (26), Expect = 7.1, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +3 Query: 96 NYLFRCFELQC 106 NYL L+C Sbjct: 4452 NYLLAVHVLKC 4484 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKGR_ECOLI C1P5Z8 Uncharacterized membrane protein ykgR (33 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YKIA_ECOLI P75704 Putative uncharacterized protein ykiA (93 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLAB_ECOLI P77473 Uncharacterized protein ylaB (516 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.48 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.48, Method: Compositional matrix adjust. Identities = 7/32 (21%), Positives = 16/32 (50%) Frame = -1 Query: 483 EEWLRQHGVHYGQGWLYSKALPKEDFLRWAEQ 514 + +L ++G + Q LP+ +F +W + Sbjct: 3892 KGFLIRNGFYNSQNLFVHPKLPRLNF*KWGAR 3797 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLAC_ECOLI P0AAS0 Inner membrane protein ylaC (156 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLBA_ECOLI P75713 Uncharacterized protein ylbA (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLBE_ECOLI P77129 Uncharacterized protein ylbE (419 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 2.3, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +1 Query: 175 MMAQGITMGDEF 186 + IT+GDEF Sbjct: 2149 LFENKITLGDEF 2184 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 8/27 (29%), Positives = 18/27 (66%) Frame = +2 Query: 330 MEAARAVSEEMAEIYLERNMQLQIPSW 356 +EAA+ +S+E A+ + + +IP++ Sbjct: 4067 LEAAQEISKEEAQQNTPISTESEIPTY 4147 Score = 16.9 bits (32), Expect = 7.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 8/8 (100%) Frame = +1 Query: 212 KQHIAEVM 219 K+H++EVM Sbjct: 3214 KKHLSEVM 3237 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLBF_ECOLI P0AAS5 Uncharacterized protein ylbF (271 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.5, Method: Compositional matrix adjust. Identities = 19/76 (25%), Positives = 24/76 (31%), Gaps = 18/76 (23%) Frame = -2 Query: 140 FRHCFQA--ALN----------------GVKTDWRHWLGKGPGLTPSHDDTLSGMLLAAW 181 F HCF A N V D+ +WL + +L +AW Sbjct: 6366 FHHCFNDLRAFNCHFIR*FSNGDRFTNDNVAVDYSNWL-------------IETLL*SAW 6226 Query: 182 YYGALDARSGRPFFAC 197 A A S R F C Sbjct: 6225 LSFAFTANSPRFFTIC 6178 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLBG_ECOLI P77688 Putative uncharacterized protein ylbG (123 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLBH_ECOLI P77759 Putative uncharacterized protein ylbH (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 6.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = -1 Query: 24 LNEENPHHLHQPYRL 38 LN +PH PYR+ Sbjct: 4651 LNTCSPHPNTCPYRI 4607 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLCE_ECOLI P77087 Putative uncharacterized protein ylcE (61 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLCG_ECOLI Q47272 Uncharacterized protein ylcG in lambdoid DLP12 prophage region (46 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLCH_ECOLI Q47268 Uncharacterized protein ylcH in lambdoid DLP12 prophage region (33 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLCI_ECOLI A5A607 Uncharacterized protein ylcI (64 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLIE_ECOLI P75800 Uncharacterized protein yliE (782 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 8/8 (100%) Frame = +1 Query: 422 KLCQRIAE 429 +LCQR+AE Sbjct: 241 ELCQRVAE 264 Score = 18.5 bits (36), Expect = 5.0, Method: Composition-based stats. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = -3 Query: 576 SPLKFITIAEDIGFI 590 SPL I ++ +GFI Sbjct: 155 SPLSRIKLSPTLGFI 111 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLIF_ECOLI P75801 Uncharacterized membrane protein yliF (442 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 27 0.011 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 26.6 bits (57), Expect = 0.011, Method: Compositional matrix adjust. Identities = 20/60 (33%), Positives = 28/60 (46%) Frame = +1 Query: 16 FIMISAVACGIYTQMVKERVYSLKQSVIDTAFAVANIAEYRRSVAIDLINTLNPTEEQLL 75 FIM A GI TQM ER+ S ++++ + R A L+ L TE Q+L Sbjct: 1771 FIMNRLEAAGIPTQM--ERLLSDNEALVKRLEMIPIECVIRNRTAGSLVKRLGITENQVL 1944 Score = 17.3 bits (33), Expect = 6.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 12/14 (85%) Frame = -3 Query: 5 NKFVLTVSLLIFIM 18 K +L++SLLIF++ Sbjct: 542 TKRLLSLSLLIFVI 501 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLII_ECOLI P75804 Soluble aldose sugar dehydrogenase yliI (Asd) (1.1.5.-) (Precursor) (371 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.83 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.83, Method: Compositional matrix adjust. Identities = 9/30 (30%), Positives = 14/30 (46%) Frame = +1 Query: 66 GLSAPLSGVPDVWAHGQGGLLDVVLAPDFA 95 L AP+ + HG+ LLD + + A Sbjct: 6520 ALRAPVVTIMGHVDHGKTSLLDCIRSTKVA 6609 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLIJ_ECOLI P0ACA7 Uncharacterized GST-like protein yliJ (208 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.73 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.73, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +2 Query: 42 ADFLAMNPNGLVP 54 AD+L++ GL+P Sbjct: 3560 ADYLSLQLRGLIP 3598 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YLIL_ECOLI P75786 Putative uncharacterized protein yliL (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMBA_ECOLI P0AB10 Uncharacterized lipoprotein ymbA (Precursor) (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +2 Query: 104 VASQPLGSAQDTLNVTVTEFNG 125 VAS + T+N+ V E N Sbjct: 4748 VASIVVDEDAKTMNIAVEEGNS 4813 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMDA_ECOLI P75917 Uncharacterized protein ymdA (Precursor) (103 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.67 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.67, Method: Composition-based stats. Identities = 6/22 (27%), Positives = 12/22 (54%) Frame = -3 Query: 40 PACDVSTQSSPVEMNCPQNGSI 61 P C+ + SP+E++ S+ Sbjct: 2591 PCCNTISAISPIEISKKNTSSV 2526 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMDB_ECOLI P0A8D6 UPF0189 protein ymdB (177 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMDC_ECOLI P75919 Uncharacterized protein ymdC (473 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMDE_ECOLI Q7DFV4 Putative uncharacterized protein ymdE (107 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.81 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.81, Method: Composition-based stats. Identities = 13/61 (21%), Positives = 26/61 (42%) Frame = +2 Query: 15 LDIASPEHQVLMNVTAKSEVAPSIIKENLSLHLTHTVKWTESLDTFLNMPTPVAFLEISN 74 LDI P +++ ++ E I K L + + W++ N P+A + +N Sbjct: 728 LDIRPPIQPLVLLKGSRIESTADISKLLLDNNRQNDTLWSQITTVMQNESLPIADRQDAN 907 Query: 75 K 75 + Sbjct: 908 Q 910 Score = 14.2 bits (25), Expect = 9.2, Method: Composition-based stats. Identities = 7/27 (25%), Positives = 14/27 (51%) Frame = -2 Query: 21 EHQVLMNVTAKSEVAPSIIKENLSLHL 47 +HQ++ ++ + S I+ LHL Sbjct: 1683 QHQIIRIFSSVDSFSLSAIQLG*FLHL 1603 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMDF_ECOLI P56614 Uncharacterized protein ymdF (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 7/12 (58%) Frame = +1 Query: 14 DRERASEAGKKG 25 DRE A G+K Sbjct: 6181 DREEARAVGRKS 6216 Score = 14.6 bits (26), Expect = 2.9, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +2 Query: 28 HSGGNFKND 36 H G ++ND Sbjct: 3710 HQGCRWRND 3736 Score = 13.5 bits (23), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 6/9 (66%) Frame = +3 Query: 30 GGNFKNDPQ 38 GG ++PQ Sbjct: 36 GGEISSNPQ 62 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFA_ECOLI P75962 Inner membrane protein ymfA (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -1 Query: 113 PWVNFFKWG 121 P +NF KWG Sbjct: 3829 PRLNF*KWG 3803 Score = 15.0 bits (27), Expect = 8.1, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = -3 Query: 62 SWYPVVAFRP 71 S +PV +F P Sbjct: 98 SKFPVASFNP 69 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFD_ECOLI P75967 Uncharacterized protein ymfD (221 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 12/44 (27%), Positives = 17/44 (38%) Frame = +1 Query: 126 CRDTIDKIVLSIKRLLKSGGETLIVNQYKSSYFKKYETGRKHLY 169 CR D + K SG T K+ YF+ +T + Y Sbjct: 964 CRPLSD*CATARKSACFSGEITGFTTTRKNGYFEYRDTTLQSCY 1095 Score = 16.5 bits (31), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = -3 Query: 133 IVLSIKRLLKSGGETLI 149 +VLS KRL S + L+ Sbjct: 578 VVLSNKRLTTSATKRLL 528 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFE_ECOLI P75968 Uncharacterized protein ymfE (234 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 3.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 83 LDLHNNAAKLL 93 LDL NNA ++ Sbjct: 4325 LDLGNNAEGII 4357 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFI_ECOLI P75972 Uncharacterized protein ymfI (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 6.4, Method: Compositional matrix adjust. Identities = 4/14 (28%), Positives = 9/14 (64%) Frame = -3 Query: 39 DSCCRLIPEGYILK 52 D C + + + Y+L+ Sbjct: 4838 DHCAQSLVQNYLLQ 4797 Score = 14.2 bits (25), Expect = 9.5, Method: Composition-based stats. Identities = 7/26 (26%), Positives = 13/26 (50%) Frame = +3 Query: 30 YQKTVKESDDSCCRLIPEGYILKSTM 55 YQK K + + + ++LKS + Sbjct: 4509 YQKLTKS*SKLRRQFVTQRHVLKSQL 4586 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFJ_ECOLI P75973 Uncharacterized protein ymfJ (102 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFK_ECOLI P75974 Putative lambdoid prophage e14 repressor protein C2 (224 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 10/14 (71%) Frame = -3 Query: 208 IGTVIFSGKPRRYK 221 I ++IFSGK + K Sbjct: 3644 IVSIIFSGKQQALK 3603 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFL_ECOLI P75976 Uncharacterized protein ymfL (185 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.8, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 10 KQPEWYVK 17 KQP+ Y+K Sbjct: 2429 KQPQCYLK 2406 Score = 15.4 bits (28), Expect = 9.6, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 11/20 (55%) Frame = +2 Query: 146 QEHAALVYKIFCISESNDAR 165 Q++ ALV + NDA+ Sbjct: 1478 QQNDALVAVLRAALNQNDAK 1537 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFM_ECOLI P75977 Uncharacterized protein ymfM (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.2, Method: Composition-based stats. Identities = 5/15 (33%), Positives = 9/15 (60%) Frame = -1 Query: 68 SKITTECPSESFVGS 82 + + T C + F+GS Sbjct: 985 TNLITACKGDIFIGS 941 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFN_ECOLI P75978 Uncharacterized protein ymfN (455 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 9/38 (23%), Positives = 21/38 (55%), Gaps = 1/38 (2%) Frame = +2 Query: 145 PNDELFGIIYTVDEGDDWTDPQV-LEKANPNIGVSVYR 181 P D + GI+Y + + PQ+ + ++ P + + ++R Sbjct: 4394 PGDRIRGILYEI--RPEARGPQLFISRSRPEMLIELFR 4501 Score = 18.1 bits (35), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -3 Query: 36 EGVCWPSIETIARQIGAG 53 E V W S+ +I +G+G Sbjct: 6056 EVVTW*SVNSICSAMGSG 6003 Score = 17.7 bits (34), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +3 Query: 90 EYHEHATDALYTTML 104 Y H T ALY +L Sbjct: 1179 RYKRHVTIALYPDLL 1223 Score = 16.9 bits (32), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -2 Query: 213 RSAYFNLVSW 222 R AYF + SW Sbjct: 2814 RRAYFLIFSW 2785 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFO_ECOLI P75980 Putative uncharacterized protein ymfO (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -1 Query: 61 MLPCNL 66 M+PC+L Sbjct: 3712 MIPCHL 3695 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFP_ECOLI P75981 Putative protein ymfP (Uncharacterized protein ymfP in lambdoid prophage e14 region) (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 9.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 9.3, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -1 Query: 178 FRPVAHTVDFHIRV 191 F PV+ +H++V Sbjct: 2995 FEPVSPIEHYHLKV 2954 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFQ_ECOLI P75982 Uncharacterized protein ymfQ in lambdoid prophage e14 region (Precursor) (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.63 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.63, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 14/31 (45%) Frame = +2 Query: 159 GDPCDSALRIWGDTVVECVLNKLCPSHTYVI 189 G+ D L W D + VLN + P+ I Sbjct: 4673 GERIDIVL--WDDNPAQFVLNAMAPAEVASI 4759 Score = 17.7 bits (34), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 8/18 (44%) Frame = -3 Query: 52 PRTTTELINRWERLCGLP 69 P T + R CGLP Sbjct: 5372 PATVITHYRQTSRYCGLP 5319 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 11/22 (50%) Frame = +2 Query: 17 PPGPVWSASDPAIAGAAPSLTR 38 P VW PA+A ++T+ Sbjct: 1232 PYAIVWQRLPPALAKIGMTVTK 1297 Score = 15.8 bits (29), Expect = 7.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +1 Query: 140 RYYWQVNMPATTNST 154 R WQ + TNST Sbjct: 709 RCRWQTVRHSATNST 753 Score = 15.4 bits (28), Expect = 8.6, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 116 ITRYDKSTFTCSSA 129 + + S F CSSA Sbjct: 5792 LASFALSLFACSSA 5751 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFR_ECOLI P75979 Uncharacterized protein ymfR (60 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFS_ECOLI P09154 Uncharacterized protein ymfS (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.49, Method: Composition-based stats. Identities = 5/16 (31%), Positives = 9/16 (56%) Frame = -1 Query: 2 KIYCCLNTVGFFMDGC 17 ++YC + F+ GC Sbjct: 6166 RVYCLFSVW*FYFPGC 6119 Score = 15.8 bits (29), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 6/11 (54%) Frame = +2 Query: 83 INSRQWQGKAA 93 INSR W A Sbjct: 1340 INSRDWDALGA 1372 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMFT_ECOLI P75975 Uncharacterized protein ymfT (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGA_ECOLI P75992 Uncharacterized protein ymgA (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 6.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 8/13 (61%) Frame = +3 Query: 47 AFRRDLIDSIIRD 59 AFR+ I IRD Sbjct: 1824 AFRQRSIGKKIRD 1862 Score = 14.2 bits (25), Expect = 7.4, Method: Composition-based stats. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +1 Query: 73 ATADNKSMFNGK 84 ATA + F+G+ Sbjct: 988 ATARKSACFSGE 1023 Score = 14.2 bits (25), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = +2 Query: 31 QTLIKQLLVMKSAEED 46 QTL + A+ED Sbjct: 908 QTLTTDWIKWNRADED 955 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGC_ECOLI P75994 Uncharacterized protein ymgC (82 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.4, Method: Composition-based stats. Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 2/29 (6%) Frame = +3 Query: 19 LEREVFMTHGYVD--SHIIDQALRLRLKD 45 LER +F Y D I+ LR+ +++ Sbjct: 3603 LERLLFTAEDYTDYLGERINLTLRIAMQN 3689 Score = 15.8 bits (29), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +1 Query: 47 TSVILSDLYLQILQYIEMHK 66 +S+ILS +IEM K Sbjct: 1555 SSLILSQK*SHYWSHIEMQK 1614 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGD_ECOLI P0AB46 Uncharacterized protein ymgD (Precursor) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGE_ECOLI P76011 UPF0410 protein ymge (Transglycosylase-associated gene protein) (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 4.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -1 Query: 27 GGFFLTCILGI 37 FFL CI+ I Sbjct: 1552 TAFFLFCIILI 1520 Score = 13.9 bits (24), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -2 Query: 2 GIIAWIIFD 10 GI+ IIF Sbjct: 1995 GIVQLIIFQ 1969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGF_ECOLI P58034 Uncharacterized protein ymgF (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.4, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 62 RERLVNH 68 RERL+N+ Sbjct: 4473 RERLINN 4453 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGG_ECOLI Q7DFV3 Uncharacterized protein ymgG (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGI_ECOLI A5A611 Uncharacterized protein ymgI (57 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 4.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +1 Query: 2 SYSSFKIILIHVKNII 17 + +FK+ L+ KN+I Sbjct: 2872 AQRNFKLALMI*KNVI 2919 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMGJ_ECOLI A5A612 Uncharacterized protein ymgJ (61 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.025 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.025, Method: Composition-based stats. Identities = 9/21 (42%), Positives = 14/21 (66%) Frame = +1 Query: 39 PTTLQRTACKKCLFLMRDIII 59 P+TLQ++ K + RD+II Sbjct: 6226 PSTLQQSFNKPVAVVNRDVII 6288 Score = 13.5 bits (23), Expect = 7.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -3 Query: 6 SSATITL 12 SSAT+T+ Sbjct: 6314 SSATVTV 6294 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMJA_ECOLI P0ACV8 Uncharacterized protein ymjA (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.2, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +2 Query: 15 EYATECAEPVAEAERTPL 32 E ECA + EAE + L Sbjct: 4961 EIDEECATVLVEAEFSSL 5014 Score = 14.2 bits (25), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -1 Query: 34 HYFQLLL 40 H+F LLL Sbjct: 6091 HHFHLLL 6071 Score = 13.9 bits (24), Expect = 9.5, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 53 AQHEMAAE 60 +QH AAE Sbjct: 6055 SQHARAAE 6078 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YMJC_ECOLI Q2EER5 Putative uncharacterized protein ymjC (60 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.82 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 0.82, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 10 GGQIARH 16 GG+I RH Sbjct: 2931 GGEIGRH 2951 Score = 16.2 bits (30), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 21 LADKQTIKQTL 31 +AD+Q QTL Sbjct: 884 IADRQDANQTL 916 Score = 14.6 bits (26), Expect = 3.5, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -1 Query: 30 TLFARQPAKIHKP 42 TLF R H+P Sbjct: 580 TLFCRTSG*QHQP 542 Score = 14.2 bits (25), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/23 (21%), Positives = 12/23 (52%) Frame = +1 Query: 34 RQPAKIHKPYPTNKMQTTSGKKV 56 ++PAK + + + + KK+ Sbjct: 5737 KKPAKAEEQAKSESAKEANAKKI 5805 Score = 13.5 bits (23), Expect = 7.8, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -1 Query: 38 KIHKPYP 44 +IH P P Sbjct: 6520 QIHPPLP 6500 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNAA_ECOLI P77658 Putative uncharacterized protein ynaA (342 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.75 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.75, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = +2 Query: 63 IDPVGAAIDTVGRR 76 IDP+GA + G R Sbjct: 4604 IDPIGACVGMRGAR 4645 Score = 18.1 bits (35), Expect = 2.9, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 10/15 (66%) Frame = -3 Query: 24 LTSSLVKMTQAGETA 38 L SSL +TQA + A Sbjct: 1292 LRSSLFLLTQAADVA 1248 Score = 16.2 bits (30), Expect = 9.9, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 284 MLPAQMTDIVV 294 M PA++ IVV Sbjct: 4733 MAPAEVASIVV 4765 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNAE_ECOLI P76073 Uncharacterized protein ynaE (88 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNAI_ECOLI P0AEB5 MscS family inner membrane protein ynaI (343 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = -1 Query: 278 FNQFADSSLNIMVY 291 FNQF S +M+Y Sbjct: 1114 FNQFIQHSTIVMLY 1073 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -3 Query: 184 WIRSPDRN 191 W+R PD N Sbjct: 3149 WLREPDLN 3126 Score = 17.3 bits (33), Expect = 4.6, Method: Compositional matrix adjust. Identities = 3/17 (17%), Positives = 12/17 (70%) Frame = +2 Query: 288 IMVYCFTKTTVWAEWLA 304 ++++C++ T+ +W+ Sbjct: 1667 LIIWCWSSVTIHQQWMV 1717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNAJ_ECOLI P64445 Uncharacterized protein ynaJ (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.13 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.13, Method: Composition-based stats. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = +1 Query: 31 RATIGGVIEQY 41 R +GGVIE Y Sbjct: 2248 RGNLGGVIEAY 2280 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNAK_ECOLI P76068 Uncharacterized protein ynaK (87 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.79 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.79, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +1 Query: 48 IDEKGEIIAGHGRVMAAE 65 I+E + +A R MAAE Sbjct: 5935 IEEDAKRVAEEARKMAAE 5988 Score = 16.2 bits (30), Expect = 1.9, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 6/10 (60%) Frame = -1 Query: 11 PLQELSPYAH 20 PLQ PY H Sbjct: 2626 PLQMKRPYPH 2597 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNBA_ECOLI P76090 Inner membrane protein ynbA (201 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNBB_ECOLI P76091 Uncharacterized protein ynbB (298 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = +2 Query: 45 IVICFSMVISGPRWMTLTF 63 I+ C+S V +WM F Sbjct: 1670 IIWCWSSVTIHQQWMVNVF 1726 Score = 16.2 bits (30), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/5 (100%), Positives = 5/5 (100%) Frame = +3 Query: 83 FPRWL 87 FPRWL Sbjct: 2184 FPRWL 2198 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNBC_ECOLI P76092 Uncharacterized protein ynbC (585 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.5, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 11/17 (64%) Frame = -2 Query: 244 RLRSPLKELHLLPGFYH 260 R R+P +LL GFYH Sbjct: 2316 R*RNPDTFSNLLIGFYH 2266 Score = 18.5 bits (36), Expect = 3.7, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 13/19 (68%) Frame = +1 Query: 489 LYELFPENEQVKNSLAGLA 507 L+ELF +N+Q+ + + A Sbjct: 1954 LFELFLKNDQLHDPIVSEA 2010 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNBD_ECOLI P76093 Uncharacterized protein ynbD (430 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 13/22 (59%) Frame = -1 Query: 90 MACCGFLLYPLKFSFIRPEVSG 111 ++CC FLL L+ +++G Sbjct: 5389 LSCCSFLLQLLRIIAKPADIAG 5324 Score = 18.1 bits (35), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 12/17 (70%) Frame = +1 Query: 287 LSMRWFCRRLEPVSKMT 303 ++++W C+RL ++ T Sbjct: 343 IAVKWACKRLGLITAET 393 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +3 Query: 94 GFLLYPLKFSFIRPEVSG 111 GF + S I+P VSG Sbjct: 3243 GFFQRRIGSSCIKPRVSG 3296 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 9/9 (100%) Frame = +3 Query: 84 LILATVMAC 92 +ILATV+AC Sbjct: 1416 VILATVVAC 1442 Score = 16.9 bits (32), Expect = 8.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = -1 Query: 168 TLTTWQHHFID 178 T W +HF D Sbjct: 4063 NFTCWHNHFTD 4031 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNBE_ECOLI P64448 Uncharacterized protein ynbE (61 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.21 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.21, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 11/12 (91%) Frame = -1 Query: 1 MKILLAALTSSF 12 ++ILL+A TSSF Sbjct: 3790 LRILLSANTSSF 3755 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNBG_ECOLI C1P600 Uncharacterized protein ynbG (21 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 2.1, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = +3 Query: 4 INCVYNI 10 I C YN+ Sbjct: 3564 ITCPYNL 3584 Score = 13.5 bits (23), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 9 NINYKLK 15 N+N KLK Sbjct: 3951 NMNKKLK 3971 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCA_ECOLI P76112 Uncharacterized N-acetyltransferase yncA (2.3.1.-) (172 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCB_ECOLI P76113 Putative NADP-dependent oxidoreductase yncB (1.-.-.-) (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +1 Query: 125 GDHPQNPSWSL 135 GD+P +W+L Sbjct: 652 GDNPAITAWNL 684 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCD_ECOLI P76115 Probable tonB-dependent receptor yncD (Precursor) (700 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCE_ECOLI P76116 Uncharacterized protein yncE (Precursor) (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +3 Query: 98 NTTQTLWFGNT 108 N +T W+GN Sbjct: 6354 NNDETRWYGNN 6386 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCG_ECOLI P76117 Uncharacterized GST-like protein yncG (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.78 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.78, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +1 Query: 114 PERWAPDAP 122 PE W D+P Sbjct: 6919 PEEWGGDSP 6945 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 11/20 (55%) Frame = +1 Query: 82 APPVGRAERQLFQRLLVWLV 101 P+GR ++ LLV+ + Sbjct: 2488 GDPIGRIGTTMYVTLLVFFL 2547 Score = 16.9 bits (32), Expect = 3.5, Method: Compositional matrix adjust. Identities = 8/38 (21%), Positives = 17/38 (44%) Frame = -2 Query: 104 VYPTFTFADYPERWAPDAPEQLKKNVIEYRKSLYIWLN 141 + P F+ Y +W +P + V+ S +W++ Sbjct: 6984 INPCSLFS*YVNKWGISSPLFWQDTVLR*FCSKTLWIS 6871 Score = 16.9 bits (32), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +2 Query: 174 WFQDNA 179 WF DNA Sbjct: 5339 WFGDNA 5356 Score = 16.9 bits (32), Expect = 3.9, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 4/28 (14%) Frame = -1 Query: 91 QLFQRLLVWLV----ANVYPTFTFADYP 114 QL RLL + +++YP+F + YP Sbjct: 2290 QLAHRLLSHRLNCHESDLYPSFLTSFYP 2207 Score = 16.2 bits (30), Expect = 5.7, Method: Compositional matrix adjust. Identities = 6/25 (24%), Positives = 11/25 (44%) Frame = -3 Query: 84 PVGRAERQLFQRLLVWLVANVYPTF 108 P+ A + WL+ + P+F Sbjct: 6437 PISSATSCAVS*SITWLIVAIPPSF 6363 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCH_ECOLI P76118 Uncharacterized protein yncH (70 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.4, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = +2 Query: 37 SQAFYN 42 SQA YN Sbjct: 6224 SQALYN 6241 Score = 13.9 bits (24), Expect = 6.7, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = -1 Query: 12 FIQRVYFI 19 F+Q YF+ Sbjct: 5836 FLQSAYFL 5813 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCI_ECOLI P76119 Putative transposase yncI (374 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.91, Method: Compositional matrix adjust. Identities = 11/33 (33%), Positives = 16/33 (48%) Frame = -1 Query: 211 PVNVFSNYKGDSFSTQEISHGRKETRLHIVSNV 243 P+NVFSN F + I + +R VS + Sbjct: 3229 PINVFSNQNRYQFISLNIVFEKNFSRSGCVSRI 3131 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 13/45 (28%) Frame = +2 Query: 43 EWQEIEDFGHERLE-------------WLKKYGDFDNGIPVDDTI 74 E EI+ F +RL+ LKK F + P DD + Sbjct: 5042 ELPEIDSFDKKRLQELRDRAQNVLTTLALKKEESFGDNKPADDLL 5176 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCJ_ECOLI P64459 Uncharacterized protein yncJ (Precursor) (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 7.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 7.4, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -2 Query: 22 AGHKGHE 28 +GH GH+ Sbjct: 2688 SGHTGHK 2668 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCL_ECOLI A5A615 Uncharacterized protein yncL (31 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.1 bits (22), Expect = 8.4, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 6/7 (85%) Frame = -3 Query: 13 FFAAVGL 19 FF+ +GL Sbjct: 5840 FFSTIGL 5820 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNCN_ECOLI P76106 UPF0395 protein yncN (58 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 3.0, Method: Composition-based stats. Identities = 5/16 (31%), Positives = 8/16 (50%) Frame = -1 Query: 14 GVDVANGSNHLKLRFH 29 GVD ++ +FH Sbjct: 2404 GVDTNESLQSVQAQFH 2357 Score = 14.2 bits (25), Expect = 4.4, Method: Composition-based stats. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = +3 Query: 29 HGRRSVMPRHPC 40 H R + + R PC Sbjct: 6012 HSRTNRIDRLPC 6047 Score = 13.9 bits (24), Expect = 6.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 47 LRKAILKQ 54 LRK+ LKQ Sbjct: 5732 LRKSQLKQ 5755 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEE_ECOLI P76146 UPF0187 protein yneE (304 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 9/28 (32%), Positives = 15/28 (53%) Frame = +2 Query: 148 RVLASNSPANRILLIMGEWLAVQRRNGQ 175 R A NSP+ + ++ LAV+ + Q Sbjct: 6146 RKKAINSPSQKQIVKKRGLLAVKAKESQ 6229 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEF_ECOLI P76147 Uncharacterized protein yneF (315 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 8/15 (53%) Frame = +3 Query: 269 VGSGRASYLTLTDDF 283 G + LTLTDD Sbjct: 369 TGINNSRNLTLTDDI 413 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEG_ECOLI P76148 Uncharacterized protein yneG (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 9.4, Method: Composition-based stats. Identities = 8/15 (53%), Positives = 8/15 (53%) Frame = +1 Query: 56 ANDGKQTPMRGHPVF 70 A KQT GHP F Sbjct: 3778 AISAKQT---GHPTF 3813 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEI_ECOLI P76149 Aldehyde dehydrogenase-like protein yneI (1.2.1.-) (462 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 10.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 10.0, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 413 ECGGVFIN 420 CG +FIN Sbjct: 4987 NCGALFIN 4964 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEJ_ECOLI P77309 Uncharacterized HTH-type transcriptional regulator yneJ (293 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 5.7, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 7/10 (70%) Frame = +1 Query: 11 AVAEAGSITQ 20 A EAG ITQ Sbjct: 6607 AAGEAGGITQ 6636 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -1 Query: 215 MESYHGMLACV 225 +E YH +AC+ Sbjct: 2977 IEHYHLKVACL 2945 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEK_ECOLI P76150 Uncharacterized protein yneK (371 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +2 Query: 158 EQFPMINPGVPI 169 +Q+P PG P+ Sbjct: 3776 KQYPQSKPGTPL 3811 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEL_ECOLI P76138 Putative HTH-type transcriptional regulator yneL (59 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.36, Method: Composition-based stats. Identities = 8/22 (36%), Positives = 11/22 (50%) Frame = +1 Query: 30 AYAVGYESYPISVGNIRGCLES 51 A G+ YP+ GCL+S Sbjct: 2371 AQTAGFR*YPLRFK*H*GCLQS 2436 Score = 16.9 bits (32), Expect = 0.62, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = +3 Query: 2 SPLRYQKWLRLNE 14 + L Y+K+ +LNE Sbjct: 4203 NKLLYKKYAKLNE 4241 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEM_ECOLI A5A616 Uncharacterized protein yneM (31 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNEN_ECOLI P76136 Two-component-system connector protein yneN (Regulatory protein b1500) (65 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = -1 Query: 1 MHATTVKNKITQ 12 +HATTV KIT Sbjct: 1444 LHATTVA-KITH 1412 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFA_ECOLI P76169 UPF0060 membrane protein ynfA (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.75 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.75, Method: Composition-based stats. Identities = 8/20 (40%), Positives = 12/20 (60%) Frame = +3 Query: 88 WTGALIALCGMLIIVAGWGR 107 W G + A+ G +IIV G+ Sbjct: 3699 WQGIIKAVDGEMIIVTVDGK 3758 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFB_ECOLI P76170 UPF0482 protein ynfB (Precursor) (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.5, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = +2 Query: 103 LDRRTG 108 +DR+TG Sbjct: 3983 IDRKTG 4000 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFC_ECOLI P67553 UPF0257 lipoprotein ynfC (Precursor) (236 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.8, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = +2 Query: 111 GKCQLAELPSAGVS 124 G C L +L GVS Sbjct: 5225 GVCTLEDLAEQGVS 5266 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFD_ECOLI P76172 Uncharacterized protein ynfD (Precursor) (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.4, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 10/20 (50%) Frame = -1 Query: 53 PNDQVDQPDSQVVGHCANDT 72 P D+ + QV+G + T Sbjct: 3601 PGDETSKL*GQVIGSSTSST 3542 Score = 15.8 bits (29), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 9/13 (69%) Frame = +1 Query: 42 VPESSFTLSIVPN 54 +PE+ L+ +PN Sbjct: 25 LPETVVRLAQIPN 63 Score = 15.4 bits (28), Expect = 4.0, Method: Composition-based stats. Identities = 6/14 (42%), Positives = 10/14 (71%) Frame = +1 Query: 27 ERIQSDISQRIINN 40 +RIQ+ + +INN Sbjct: 1717 QRIQAFDRKGMINN 1758 Score = 14.6 bits (26), Expect = 7.7, Method: Compositional matrix adjust. Identities = 8/25 (32%), Positives = 11/25 (44%) Frame = -3 Query: 45 SSFTLSIVPNDQVDQPDSQVVGHCA 69 SS T +VP + P + CA Sbjct: 2534 SSVTYIVVPILPMGSPHKKCSLLCA 2460 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFE_ECOLI P77374 Putative dimethyl sulfoxide reductase chain ynfE (DMSO reductase) (1.8.99.-) (Precursor) (808 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 2.9, Method: Composition-based stats. Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 3/36 (8%) Frame = -2 Query: 414 TYTITIERLPVLDNPVKTSISCFSWTDAID---HGP 446 T I++ + +DN CFS D +D H P Sbjct: 6885 TLWISVWFIYFVDNNDNGDFRCFSMLDGLDRLWHDP 6778 Score = 18.5 bits (36), Expect = 5.0, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = +3 Query: 113 NYPMKRVGKR 122 YP +RVG+R Sbjct: 6909 RYPARRVGRR 6938 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFF_ECOLI P77783 Probable dimethyl sulfoxide reductase chain ynfF (DMSO reductase) (1.8.99.-) (Precursor) (807 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 3.2, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 9/10 (90%) Frame = +3 Query: 116 KYPMKRVGKR 125 +YP +RVG+R Sbjct: 6909 RYPARRVGRR 6938 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFG_ECOLI P0AAJ1 Probable anaerobic dimethyl sulfoxide reductase chain ynfG (DMSO reductase iron-sulfur subunit ynfG) (205 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.7, Method: Compositional matrix adjust. Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 1/50 (2%) Frame = +1 Query: 89 DGFVVVDEDVCIGCRYCHMACP-YGAPQYNAEKGHMTKCDGCYSRVAEGK 137 D F+++ D G + + N G MT+ C RVAEGK Sbjct: 130 DNFILLSGDDATGFDFIQKGGQGIISVTANVAAGGMTEL--C-QRVAEGK 270 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -3 Query: 164 TLAAVAPLPRAHFT 177 ++ VAP P HF Sbjct: 1520 SMQRVAPQPAHHFV 1479 Score = 16.2 bits (30), Expect = 5.9, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 111 YGAPQY 116 YG+PQY Sbjct: 5317 YGSPQY 5334 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFH_ECOLI P76173 Anaerobic dimethyl sulfoxide reductase chain ynfH (DMSO reductase anchor subunit ynfH) (284 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.80, Method: Compositional matrix adjust. Identities = 8/23 (34%), Positives = 11/23 (47%) Frame = -1 Query: 119 LFSMALGVIFVWMMTCVYQIDTV 141 L +L TC Y+IDT+ Sbjct: 4666 LVRHSLNTCSPHPNTCPYRIDTL 4598 Score = 16.2 bits (30), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 9/19 (47%) Frame = -3 Query: 233 AGLGCWLCPLIRRREPHVA 251 A L CW+ ++ P A Sbjct: 6824 AALACWMASIVCGMTPSSA 6768 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFL_ECOLI P77559 Uncharacterized HTH-type transcriptional regulator ynfL (297 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.53, Method: Compositional matrix adjust. Identities = 9/18 (50%), Positives = 11/18 (61%) Frame = +1 Query: 193 PFVFFDPHVGTGLYDDIL 210 PFV GTG+ DD+L Sbjct: 6943 PFVHVSAKKGTGI-DDLL 6993 Score = 16.2 bits (30), Expect = 8.4, Method: Compositional matrix adjust. Identities = 10/37 (27%), Positives = 20/37 (54%) Frame = -3 Query: 153 ALPESLEHAVIVHEPLMAMIPHDHPLANNPNVTLAEL 189 A+P S ++ EPL A++ A++ VT++ + Sbjct: 6380 AIPPSFIIVLMT*EPLTAIL-----FASSATVTVSPM 6285 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFM_ECOLI P43531 Inner membrane transport protein ynfM (417 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.8, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 10/15 (66%) Frame = +1 Query: 139 SGVAAVGMTYLSEEI 153 + VAA GMT L + + Sbjct: 214 ANVAAGGMTELCQRV 258 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFN_ECOLI P76157 Uncharacterized protein ynfN (51 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 0.90, Method: Composition-based stats. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -2 Query: 10 THLTVMAAGFPSLT 23 T LTV FPS + Sbjct: 4305 TFLTVAVTIFPSCS 4264 Score = 14.2 bits (25), Expect = 3.3, Method: Composition-based stats. Identities = 4/12 (33%), Positives = 9/12 (75%) Frame = -1 Query: 10 THLTVMAAGFPS 21 +HL ++ + FP+ Sbjct: 2800 SHL*LVDSDFPT 2765 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNFO_ECOLI Q2EES0 Uncharacterized protein ynfO from qin prophage (77 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.9, Method: Compositional matrix adjust. Identities = 4/9 (44%), Positives = 7/9 (77%) Frame = +1 Query: 49 LCSEKRVSS 57 LC+ KR++ Sbjct: 5026 LCTRKRITG 5052 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNHF_ECOLI A5A618 Uncharacterized protein ynhF (29 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNHG_ECOLI P76193 Uncharacterized protein ynhG (Precursor) (334 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.1, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 11/16 (68%) Frame = +2 Query: 104 ELRLYYYPPGENIVQV 119 ++R+YY ENI+ + Sbjct: 455 KVRVYYLDC*ENIMAI 502 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNIA_ECOLI P77739 Uncharacterized protein yniA (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.0, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = +1 Query: 32 AWHLRYAG 39 AW+LRY Sbjct: 673 AWNLRYCA 696 Score = 16.5 bits (31), Expect = 6.2, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -1 Query: 44 VKCDERELLPGF 55 + C E +L P F Sbjct: 2260 LNCHESDLYPSF 2225 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNIB_ECOLI P76208 Uncharacterized protein yniB (178 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%) Frame = +1 Query: 126 EKAKGEEGLTREQIESR 142 EKAK E+ EQ+E + Sbjct: 5692 EKAKTEQAKQVEQVEKK 5742 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNIC_ECOLI P77247 Phosphatase yniC (3.1.3.-) (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -3 Query: 144 LPYSKPHPQVYLDCAA 159 LP PH + L CA+ Sbjct: 2504 LPMGSPHKKCSLLCAS 2457 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 9/17 (52%), Positives = 10/17 (58%) Frame = -1 Query: 136 DALASAEKLPYSKPHPQ 152 DAL + YSKPH Q Sbjct: 2047 DALH*PSQRLYSKPH*Q 1997 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNID_ECOLI Q2EES1 Uncharacterized protein yniD (35 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJA_ECOLI P76222 Uncharacterized protein ynjA (182 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.0, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 6/12 (50%) Frame = +1 Query: 30 PIRWWGRIPFIF 41 P W G PF+ Sbjct: 6919 PEEWGGDSPFVH 6954 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJB_ECOLI P76223 Protein ynjB (388 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.4, Method: Compositional matrix adjust. Identities = 6/24 (25%), Positives = 12/24 (50%) Frame = +1 Query: 21 SDWQEIKNEAKGQTVWFNAWGGDT 44 +D + ++ E + WGGD+ Sbjct: 6871 ADPERLRTELSQHGILPEEWGGDS 6942 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJC_ECOLI P76224 Inner membrane ABC transporter permease protein ynjC (511 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJD_ECOLI P76909 Uncharacterized ABC transporter ATP-binding protein ynjD (217 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJE_ECOLI P78067 Putative thiosulfate sulfurtransferase ynjE (2.8.1.1) (Precursor) (435 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJF_ECOLI P76226 Inner membrane protein ynjF (206 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.56, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 10/21 (47%) Frame = +1 Query: 24 PGITPDGLTLVGFAIGVLALP 44 PG P+ LTL L +P Sbjct: 5539 PGQVPNKLTLQRKIRSTLNVP 5601 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 8/14 (57%) Frame = -2 Query: 156 EGTETILLFVLGCL 169 T I LF+L CL Sbjct: 3867 STTARISLFILSCL 3826 Score = 16.5 bits (31), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = +1 Query: 18 VRVLDKPGITPDGL 31 + +DKP P+ L Sbjct: 6847 INKIDKPNADPERL 6888 Score = 16.5 bits (31), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = +2 Query: 14 LHQCVRVLDKPGIT 27 LHQCV + + I+ Sbjct: 6710 LHQCVHEVLRQQIS 6751 Score = 15.8 bits (29), Expect = 8.4, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 5/12 (41%) Frame = -2 Query: 112 GGWLLFAFIGTG 123 WL FAF Sbjct: 6234 SAWLSFAFTANS 6199 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJH_ECOLI P76227 Uncharacterized protein ynjH (Precursor) (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.41, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 10/13 (76%) Frame = -3 Query: 77 TLSTNPLVWRRVK 89 TLS NPL+ RV+ Sbjct: 785 TLSGNPLIVPRVE 747 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YNJI_ECOLI P76228 Inner membrane protein ynjI (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.16 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.16, Method: Compositional matrix adjust. Identities = 9/29 (31%), Positives = 17/29 (58%) Frame = +2 Query: 22 IFNSNFERMIKENKAMLLCKWGFYLTCVV 50 ++ + +I++ + LL KW L+CVV Sbjct: 6374 VWQQSTRLLIRKQRNWLLKKWVIKLSCVV 6460 Score = 18.9 bits (37), Expect = 1.7, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 13/29 (44%) Frame = -1 Query: 85 LIVRAGFKAKKEQLHYYQAKGIEPLSIEK 113 L+ R GF+ HY+ P+S + Sbjct: 3013 LVPRTGFEPVSPIEHYHLKVACLPISPPR 2927 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +3 Query: 105 GIEPLSIEKLQAL 117 G EP+ + LQA+ Sbjct: 936 GTEPMKMSPLQAV 974 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAA_ECOLI P76257 Probable ATP-dependent helicase yoaA (3.6.1.-) (636 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +1 Query: 1 MTDDFAPDG 9 + D+F+PDG Sbjct: 2170 LGDEFSPDG 2196 Score = 17.7 bits (34), Expect = 7.9, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 9/19 (47%) Frame = +1 Query: 339 ATLYRTRLKRLKEINQPGY 357 A LYR + K + P Y Sbjct: 1618 AELYRGKAKTVYTTEDPNY 1674 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAB_ECOLI P0AEB7 UPF0076 protein yoaB (114 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.8, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -2 Query: 97 AGLMNPK 103 AGL++PK Sbjct: 5163 AGLLSPK 5143 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAC_ECOLI P64490 Uncharacterized protein yoaC (119 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.64 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.64, Method: Composition-based stats. Identities = 7/24 (29%), Positives = 15/24 (62%) Frame = +2 Query: 37 VSAPTPSSMNESTAKGIFKYLKEL 60 +SA + ++ + G+F YLK++ Sbjct: 3248 LSAANRVQLYQTPSFGVFCYLKKM 3319 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAD_ECOLI P76261 Uncharacterized protein yoaD (532 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAE_ECOLI P0AEC0 UPF0053 inner membrane protein yoaE (518 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 4.0, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +2 Query: 455 VEHLADDDDIATV 467 +EHL D++ ATV Sbjct: 4949 IEHLEIDEECATV 4987 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAF_ECOLI P64493 Uncharacterized protein yoaF (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.3, Method: Composition-based stats. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = +2 Query: 75 WRRDH 79 WR DH Sbjct: 3725 WRNDH 3739 Score = 15.8 bits (29), Expect = 2.7, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -2 Query: 2 KIISFVLPCLL 12 +I F+L CL+ Sbjct: 3855 RISLFILSCLV 3823 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAG_ECOLI P64496 Protein yoaG (60 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 1.1, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 5/8 (62%) Frame = +2 Query: 53 NEHDVCGW 60 N+H C W Sbjct: 3731 NDHRYCRW 3754 Score = 14.6 bits (26), Expect = 3.3, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +1 Query: 54 EHDVCG 59 EH +CG Sbjct: 2473 EHFLCG 2490 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAH_ECOLI P67338 UPF0181 protein yoaH (59 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAI_ECOLI P76239 Uncharacterized protein yoaI (34 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAJ_ECOLI C1P603 Uncharacterized protein yoaJ (24 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOAK_ECOLI C1P602 Uncharacterized membrane protein yoaK (32 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 8/14 (57%) Frame = +3 Query: 1 MRIGIIFPVVIFIT 14 R+G FP+ I+ Sbjct: 6921 RRVGRRFPICSRIS 6962 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOBA_ECOLI P0AA57 Protein yobA (Precursor) (124 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.7, Method: Composition-based stats. Identities = 4/15 (26%), Positives = 9/15 (60%) Frame = -3 Query: 78 AKRNEQDQKQLIVPL 92 +K+N ++VP+ Sbjct: 2549 SKKNTSSVTYIVVPI 2505 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOBB_ECOLI P76280 Uncharacterized protein yobB (218 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 7.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 7.3, Method: Compositional matrix adjust. Identities = 6/19 (31%), Positives = 12/19 (63%) Frame = -3 Query: 169 SIAVLMANARGNSALWDEY 187 +IAV+ N + A W+++ Sbjct: 3497 AIAVIDINTQCGLAPWNKF 3441 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 7/11 (63%), Positives = 8/11 (72%) Frame = -2 Query: 117 LGRRSRTITVV 127 +GR S ITVV Sbjct: 885 MGRLSFCITVV 853 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOBD_ECOLI P67601 UPF0266 membrane protein yobD (152 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.37 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.37, Method: Compositional matrix adjust. Identities = 12/50 (24%), Positives = 22/50 (44%) Frame = -3 Query: 87 IRVPKIIFKQKGFFFANVWIEYSRIKAMNLSEDGVLVMQLEQRRLLIRVR 136 I PK+ K+ F+NV++ + R + S V++ + L R Sbjct: 2270 ITPPKLPRKRSLSIFSNVFLSHKRQPSGENSSPKVILFSNKPNSSLKSTR 2121 Score = 18.9 bits (37), Expect = 0.70, Method: Compositional matrix adjust. Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 6/40 (15%) Frame = +2 Query: 82 FYIFWIRVPKIIFK------QKGFFFANVWIEYSRIKAMN 115 + I W R+P + K ++ N+ + YS I + + Sbjct: 1235 YAIVWQRLPPALAKIGMTVTKRDRQQGNIAVTYSPINSRD 1354 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOBF_ECOLI P64508 Uncharacterized protein yobF (47 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 2.5, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = -2 Query: 18 YRFSAEPYIGA 28 YR+ +IGA Sbjct: 3486 YRYKYAVWIGA 3454 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOBH_ECOLI Q2MB16 Uncharacterized protein yobH (Precursor) (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOBI_ECOLI C1P604 Uncharacterized protein yobI (21 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 1.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 4 FITHFFTE 11 F+THFF+ Sbjct: 6444 FMTHFFSN 6421 Score = 15.0 bits (27), Expect = 1.7, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -2 Query: 9 FTEYVI 14 FTEY+I Sbjct: 2097 FTEYII 2080 Score = 13.5 bits (23), Expect = 5.1, Method: Composition-based stats. Identities = 4/12 (33%), Positives = 7/12 (58%) Frame = +1 Query: 7 HFFTEYVILKYL 18 HF + ++YL Sbjct: 3148 HF*KNFFQIRYL 3183 Score = 13.5 bits (23), Expect = 5.4, Method: Compositional matrix adjust. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -2 Query: 2 YIFITHF 8 +IF HF Sbjct: 5994 FIFCCHF 5974 Score = 12.7 bits (21), Expect = 8.4, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = +3 Query: 7 HFFTEY 12 HF TE+ Sbjct: 6231 HFTTEF 6248 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YODA_ECOLI P76344 Metal-binding protein yodA (Cadmium-induced protein yodA) (Precursor) (216 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.26, Method: Compositional matrix adjust. Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 6/35 (17%) Frame = +3 Query: 2 AIRLYKLAVALGVF------IVSAPAFSHGHHSHG 30 A+ Y L V+L I+SAP + GH G Sbjct: 3333 ALFFYALGVSLSTLEQKLTEIISAPVKALGHKLVG 3437 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YODC_ECOLI P64517 Uncharacterized protein yodC (60 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YODD_ECOLI P64519 Uncharacterized protein yodD (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOEA_ECOLI P76356 Putative uncharacterized protein yoeA (167 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.53, Method: Compositional matrix adjust. Identities = 10/13 (76%), Positives = 11/13 (84%), Gaps = 1/13 (7%) Frame = +1 Query: 57 ATI-QVIDQQTLQ 68 ATI QVIDQ+T Q Sbjct: 6379 ATINQVIDQETAQ 6417 Score = 18.5 bits (36), Expect = 0.94, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 14/20 (70%) Frame = -1 Query: 5 IPCRIYILSTLSLCISGIVS 24 + CR+Y+ +T +C+ I++ Sbjct: 1198 VTCRLYL*ATDFVCVLSIIA 1139 Score = 17.7 bits (34), Expect = 1.6, Method: Compositional matrix adjust. Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 4/44 (9%) Frame = +1 Query: 128 VGLLIDESALERVEVVKGP----YSVLYGSQAIGGIVNFITKKG 167 +GL LER+ ++K + +L G A G +FI K G Sbjct: 67 IGLKEATGNLERLSMIKPSVGDNFILLSGDDATG--FDFIQKGG 192 Score = 16.2 bits (30), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 161 NFITKKG 167 NF+ KKG Sbjct: 4257 NFVNKKG 4277 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOEB_ECOLI P69348 Toxin yoeB (3.1.-.-) (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 2.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 54 GFWSRRI 60 GF+ RRI Sbjct: 3243 GFFQRRI 3263 Score = 14.2 bits (25), Expect = 7.8, Method: Composition-based stats. Identities = 9/24 (37%), Positives = 11/24 (45%) Frame = -1 Query: 45 PEPLKHNLSGFWSRRITEEHRLVY 68 PE L H L + +H LVY Sbjct: 6739 PEHLVHAL-------M*TQHALVY 6689 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOEF_ECOLI Q2EES3 Putative uncharacterized protein yoeF (118 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.44, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -1 Query: 52 VKTPYRAMNH 61 + P+RA+NH Sbjct: 46 ISPPFRAINH 17 Score = 15.8 bits (29), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 7/12 (58%) Frame = -3 Query: 106 ELFALLHTEEGC 117 +L L+H GC Sbjct: 1379 DLAHLMHPNHGC 1344 Score = 15.8 bits (29), Expect = 4.2, Method: Composition-based stats. Identities = 6/26 (23%), Positives = 13/26 (50%) Frame = -2 Query: 61 HPVIGVVTKADLASMEQISLVKSWLR 86 HP V + L +++ ++ +W R Sbjct: 3081 HPASENVANSTLIIIQKQAISMNWYR 3004 Score = 15.0 bits (27), Expect = 5.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +2 Query: 38 WQQAGISALKQ 48 WQ + +LKQ Sbjct: 6326 WQLKALKSLKQ 6358 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOEI_ECOLI C1P606 Uncharacterized protein yoeI (20 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHC_ECOLI P0AD17 Inner membrane protein yohC (195 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.3, Method: Compositional matrix adjust. Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 4/46 (8%) Frame = +2 Query: 19 NRENET----ISHHYTHHVLLMAAIPVICAFIGTTQIGWNFGDGTI 60 NR+N+T I+ + L +A + T I WN D + Sbjct: 821 NRQNDTLWSQITTVMQNESLPIADRQDANQTLTTDWIKWNRADEDV 958 Score = 18.1 bits (35), Expect = 1.5, Method: Compositional matrix adjust. Identities = 7/19 (36%), Positives = 10/19 (52%) Frame = -3 Query: 143 TGYLLYLGIPSFLNINKEE 161 YLL L SFL + ++ Sbjct: 4814 QNYLLQLLCSSFLRLRQQR 4758 Score = 15.4 bits (28), Expect = 8.6, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -2 Query: 188 WGYGYR 193 +GYG+R Sbjct: 6021 FGYGFR 6004 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHD_ECOLI P33366 Inner membrane protein yohD (192 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHF_ECOLI P33368 Uncharacterized oxidoreductase yohF (1.-.-.-) (253 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.7, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = -3 Query: 173 RHKILVNAVAPG 184 R +I VNA PG Sbjct: 6728 RARIDVNAACPG 6693 Score = 17.3 bits (33), Expect = 3.3, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 9/11 (81%) Frame = +3 Query: 240 DGGFMLANPQF 250 +GG + +NPQ+ Sbjct: 33 NGGEISSNPQY 65 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 15/29 (51%) Frame = +2 Query: 71 LEKLIQRLGRIDVLVNNAGAMTKAPFLDM 99 L KLI+ L +I NNA K L++ Sbjct: 1097 LNKLIEGLDKIRSNSNNAQNTDKIGRLEV 1183 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHJ_ECOLI P60632 UPF0299 membrane protein yohJ (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.0, Method: Composition-based stats. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 2 SKTLNIIW 9 SKT ++IW Sbjct: 4179 SKTTDLIW 4156 Score = 15.8 bits (29), Expect = 3.9, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -2 Query: 108 FLVVSWSSQL 117 FL+ SW +Q+ Sbjct: 2802 FLIFSWLTQI 2773 Score = 15.8 bits (29), Expect = 4.5, Method: Composition-based stats. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +2 Query: 1 MSKTLNIIWQYLRAFVLIY 19 MSK LN+ R F+ Y Sbjct: 2279 MSKLLNVSGFR*RPFLTTY 2335 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHK_ECOLI P0AD19 Inner membrane protein yohK (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHN_ECOLI P64534 Uncharacterized protein yohN (Precursor) (112 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.27 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.27, Method: Composition-based stats. Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 6/24 (25%) Frame = -3 Query: 58 MYRTDEYNI------KQWQLRNLP 75 MYR D+Y + +QW L P Sbjct: 839 MYRFDDYCLTIIY*YQQWTLSGNP 768 Score = 18.5 bits (36), Expect = 0.62, Method: Composition-based stats. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +3 Query: 100 IIKAYDGEI 108 IIKA DGE+ Sbjct: 3708 IIKAVDGEM 3734 Score = 16.9 bits (32), Expect = 1.8, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +1 Query: 94 SDTDGKIIKAYD 105 S DG+ I+A+D Sbjct: 1702 SAMDGQRIQAFD 1737 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHO_ECOLI Q2EES6 UPF0387 membrane protein yohO (35 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.5 bits (23), Expect = 5.8, Method: Composition-based stats. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = +1 Query: 7 GVIALFLFMALGGI 20 G+I++ +A GG+ Sbjct: 196 GIISVTANVAAGGM 237 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOHP_ECOLI C1P609 Uncharacterized membrane protein yohP (27 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOJI_ECOLI P33941 ABC transporter ATP-binding protein yojI (547 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOJN_ECOLI P39838 Sensor-like histidine kinase yojN (2.7.13.3) (Phosphotransfer intermediate yojN) (890 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 8.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 8.7, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = -2 Query: 756 GVREIGPGQLCVNFNM 771 G+R I NFN+ Sbjct: 5676 GIRRIDVSSFSTNFNL 5629 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YOJO_ECOLI A5A619 Uncharacterized protein yojO (54 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPAB_ECOLI A5A620 Uncharacterized protein ypaB (47 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 1.7, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 2 TLLQVHNFVDNSG 14 T+ VH+ +DNS Sbjct: 2101 TIY*VHH*LDNSA 2063 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDA_ECOLI P0AA93 Inner membrane protein ypdA (565 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.44 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.44, Method: Compositional matrix adjust. Identities = 19/93 (20%), Positives = 41/93 (44%), Gaps = 14/93 (15%) Frame = +2 Query: 424 KDYIAIEQARFGDKLT-VIYDIDEE-------VNCCIPSLLIQ------PLVENAIVHGI 469 +D + E R GD++ ++Y+I E ++ P +LI+ P ++ ++ Sbjct: 4364 EDMLPRENIRPGDRIRGILYEIRPEARGPQLFISRSRPEMLIELFRIEVPEIDEELIE-- 4537 Query: 470 QPCKGKGVVTISVAECGNRVRIAVRDTGHGIDP 502 + ++ + +R +IAV+ IDP Sbjct: 4538 --------IKAAIRDPASRAKIAVKTNDKRIDP 4612 Score = 18.9 bits (37), Expect = 2.5, Method: Compositional matrix adjust. Identities = 8/22 (36%), Positives = 13/22 (59%) Frame = +2 Query: 476 GVVTISVAECGNRVRIAVRDTG 497 G ISV + GN++ + V+ G Sbjct: 968 GRYQISVQQQGNQLALVVKSLG 1033 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDB_ECOLI P0AE39 Uncharacterized response regulatory protein ypdB (244 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.69, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 12/15 (80%) Frame = -1 Query: 40 KFLQHNRVDAIFLDI 54 +F+QH+ + ++LDI Sbjct: 1108 QFIQHSTIVMLYLDI 1064 Score = 17.7 bits (34), Expect = 2.6, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 7/32 (21%) Frame = +2 Query: 67 NISQFAHKPFIV-------FITAWKEHAVEAF 91 N+S F +PF+ F + H ++AF Sbjct: 2294 NVSGFR*RPFLTTYQRIKRFKVKLRLHRLQAF 2389 Score = 17.3 bits (33), Expect = 3.4, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%) Frame = -2 Query: 65 AQNISQFAHKPFIVFI 80 A NIS HK I+FI Sbjct: 558 ANNIS---HKTLIIFI 520 Score = 16.2 bits (30), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 189 PSHFFR 194 PSHFF+ Sbjct: 3325 PSHFFQ 3308 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDC_ECOLI P77396 Uncharacterized HTH-type transcriptional regulator ypdC (285 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.1, Method: Compositional matrix adjust. Identities = 8/24 (33%), Positives = 11/24 (45%) Frame = +2 Query: 169 NMPPGNSQPRGDFLYHSICNWVQD 192 N+ N++P YH C W D Sbjct: 3665 NVTYSNAKPS*VARYHQGCRWRND 3736 Score = 18.1 bits (35), Expect = 2.3, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -3 Query: 63 LEAKQQRLVEGEMLFIPA 80 + A +V MLF+PA Sbjct: 5420 ISAASNFMVTSVMLFLPA 5367 Score = 16.2 bits (30), Expect = 9.6, Method: Compositional matrix adjust. Identities = 9/32 (28%), Positives = 15/32 (46%) Frame = +1 Query: 60 GNLLEAKQQRLVEGEMLFIPARAANLPVNNKP 91 GN+ + ++ E E L PA+ + KP Sbjct: 2728 GNMSSKQHRQSSEWENLSQPAKDEKISAPPKP 2823 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDE_ECOLI P77585 Aminopeptidase ypdE (3.4.11.-) (345 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.23, Method: Compositional matrix adjust. Identities = 13/41 (31%), Positives = 20/41 (48%) Frame = +2 Query: 139 GIRPGDRVTFDTTFQVLPHQRVMGKAFDDRLGCYLLVTLLR 179 IRPGDR+ +++ P R + F R +L+ L R Sbjct: 4385 NIRPGDRIR-GILYEIRPEAR-GPQLFISRSRPEMLIELFR 4501 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 9/18 (50%) Frame = +2 Query: 252 LIAPPKLTAWVETVAAEI 269 L APP +WV + + Sbjct: 6521 LYAPPSSPSWVMLIMVRL 6574 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDF_ECOLI P76524 Aminopeptidase ypdF (3.4.11.-) (361 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = +3 Query: 145 RGAEHIRRFIQ 155 R H+RRF++ Sbjct: 3882 RNPFHVRRFLK 3914 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDI_ECOLI O32528 Uncharacterized lipoprotein ypdI (Precursor) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -3 Query: 17 MACNVFAFSI 26 AC+V AFS+ Sbjct: 5717 FACSVLAFSV 5688 Score = 15.8 bits (29), Expect = 2.7, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = +1 Query: 40 KTSAMTTTHSTKLQPSQA 57 KTS + STK+ +A Sbjct: 6568 KTSLLDCIRSTKVAAGEA 6621 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDJ_ECOLI Q2EET0 Putative uncharacterized protein ypdJ (46 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 2.1, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +3 Query: 18 FFNNVTTRGEIIEPY 32 FFN + ++EPY Sbjct: 1557 FFNLESKIITLLEPY 1601 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPDK_ECOLI C1P610 Uncharacterized membrane protein ypdK (23 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPEA_ECOLI P76539 Acetyltransferase ypeA (2.3.1.-) (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.23 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.23, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 10/13 (76%) Frame = -2 Query: 111 NDMVLGMYERLGY 123 +DMV+G ++ GY Sbjct: 6051 SDMVIGQFDLFGY 6013 Score = 17.3 bits (33), Expect = 1.9, Method: Composition-based stats. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -2 Query: 23 LLRPWNDPEMDIERKMNHDV 42 L R W+DP + NHD+ Sbjct: 6801 LDRLWHDPIIG-RNNQNHDI 6745 Score = 16.9 bits (32), Expect = 2.3, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = -1 Query: 22 DLLRPWN 28 DLL+PW+ Sbjct: 6109 DLLQPWH 6089 Score = 15.8 bits (29), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 75 HPEFRG 80 +PEFRG Sbjct: 3280 NPEFRG 3297 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPEB_ECOLI P0AD40 Uncharacterized protein ypeB (72 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.8, Method: Composition-based stats. Identities = 7/15 (46%), Positives = 9/15 (60%) Frame = +1 Query: 57 KTEGLTQLVQPLKRP 71 KTE Q+ Q K+P Sbjct: 5701 KTEQAKQVEQVEKKP 5745 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPEC_ECOLI P64542 Uncharacterized protein ypeC (Precursor) (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.8, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +2 Query: 22 GEITLLPSIKLQIGDR 37 G+ +LP ++ GDR Sbjct: 4358 GQEDMLPRENIRPGDR 4405 Score = 15.4 bits (28), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = +3 Query: 37 RDHYGNYWDGGHWRD 51 RD++ N G W D Sbjct: 195 RDYFSNGQCGSRWND 239 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPFG_ECOLI P76559 Uncharacterized protein ypfG (Precursor) (347 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +2 Query: 180 PALKEVAVV 188 P LKE+AVV Sbjct: 6092 PRLKEIAVV 6118 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = -2 Query: 201 NDLLDYGNWRMNGL 214 N +DY NW + L Sbjct: 6282 NVAVDYSNWLIETL 6241 Score = 16.2 bits (30), Expect = 9.9, Method: Compositional matrix adjust. Identities = 8/12 (66%), Positives = 9/12 (75%) Frame = -1 Query: 3 YRIFLLFFFALL 14 Y FLL F+ALL Sbjct: 5998 YLHFLLPFYALL 5963 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPFH_ECOLI P76561 Esterase ypfH (3.1.-.-) (232 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPFI_ECOLI P76562 Uncharacterized protein ypfI (671 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 7.1, Method: Compositional matrix adjust. Identities = 11/37 (29%), Positives = 18/37 (48%) Frame = -3 Query: 497 TGELWRFWQRCGFVLVRMGNHREASSGCYTAMALLPM 533 TG L + GF+L+ R +S + + +LLP Sbjct: 6260 TGLLKLCCKVLGFLLLLRPTARASSRSAFDSESLLPF 6150 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPFJ_ECOLI P64429 Uncharacterized protein ypfJ (287 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.5, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 10/13 (76%) Frame = +2 Query: 209 FAGVWGHSMQQQG 221 FAG + S+QQQG Sbjct: 962 FAGRYQISVQQQG 1000 Score = 18.5 bits (36), Expect = 1.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 10/15 (66%) Frame = +3 Query: 159 FAQGYVIAHEVGHHV 173 F YV+ HEV +++ Sbjct: 4416 FCMRYVLKHEVPNYL 4460 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 10/16 (62%) Frame = +2 Query: 215 HSMQQQGVLETGDLEE 230 + +QGV + D+EE Sbjct: 5240 EDLAEQGVSDLADIEE 5287 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPFM_ECOLI A5A621 Uncharacterized protein ypfM (19 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPFN_ECOLI Q2EET2 UPF0370 protein ypfN (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPFU_ECOLI P18355 Uncharacterized protein in traD-traI intergenic region (75 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.2, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = +1 Query: 11 SQAVRLPKAVALPENVKRVE 30 ++ +RLP N KRVE Sbjct: 385 AETLRLPMTSLTLVNQKRVE 444 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHA_ECOLI P0AD47 Inner membrane protein yphA (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.7, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -1 Query: 53 MPMLAAIIAVV 63 +PML + AVV Sbjct: 1849 LPMLRCLKAVV 1817 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHB_ECOLI P76584 Uncharacterized protein yphB (290 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.90, Method: Compositional matrix adjust. Identities = 11/54 (20%), Positives = 19/54 (35%) Frame = -3 Query: 198 WVNNGFAGWNGQARIEQPQEGYAIIMETTPPAPCYFIFVSDPAFDKGYAFDFFC 251 + + G ++ G+ +++ T A S AFD FFC Sbjct: 6287 MITSRLTTATGLLKLCCKVLGFLLLLRPTARAS------SRSAFDSESLLPFFC 6144 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -3 Query: 99 DSLCLVYEH 107 D CL +EH Sbjct: 1172 DRFCLCFEH 1146 Score = 17.3 bits (33), Expect = 4.0, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%) Frame = -3 Query: 262 HHRPEGGDLIALAPGESTTS 281 HHR G + L+ TTS Sbjct: 605 HHRSLGVYNVVLSNKRLTTS 546 Score = 17.3 bits (33), Expect = 4.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +2 Query: 219 YAIIMETTPPA 229 YAI+ + PPA Sbjct: 1235 YAIVWQRLPPA 1267 Score = 16.2 bits (30), Expect = 9.2, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +3 Query: 56 RVSGNRFVWQG 66 R RF+W G Sbjct: 2595 RCGYGRFIWSG 2627 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHC_ECOLI P77360 Uncharacterized zinc-type alcohol dehydrogenase-like protein yphC (1.-.-.-) (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.023 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.023, Method: Compositional matrix adjust. Identities = 30/122 (24%), Positives = 50/122 (40%), Gaps = 17/122 (13%) Frame = +2 Query: 235 IIAELTHGGADVALDCSGNAAGRLLALQSTADWGRVVYIGETGKVEFEVSADLMHHQRRI 294 II L HG D+A A G+ L ++ V+ G + ++S L+ + R+ Sbjct: 656 IILPLQHGTYDIAQVSQQGAVGKQLDIRPPIQ-PLVLLKGSRIESTADISKLLLDNNRQN 832 Query: 295 IGSW--VTSLFHMEKCA----HD-----LTDWKLWPRN------AITHRFSLEQAGDAYA 337 W +T++ E D TDW W R A ++ S++Q G+ A Sbjct: 833 DTLWSQITTVMQNESLPIADRQDANQTLTTDWIKWNRADEDVPFAGRYQISVQQQGNQLA 1012 Query: 338 LM 339 L+ Sbjct: 1013LV 1018 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHD_ECOLI P77315 Probable ABC transporter permease protein yphD (332 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.61 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.61, Method: Compositional matrix adjust. Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 7/33 (21%) Frame = +2 Query: 164 VLDWLGG-------QFLGVPVSALIMIVLFALF 189 VLDW G QF+ + +++ VLFA F Sbjct: 2969 VLDWAYGFKSRPRYQFIEIACFWMMINVLFATF 3067 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHE_ECOLI P77509 Uncharacterized ABC transporter ATP-binding protein yphE (503 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 1.1, Method: Compositional matrix adjust. Identities = 7/9 (77%), Positives = 8/9 (88%) Frame = +2 Query: 474 ILLLQHGTF 482 IL LQHGT+ Sbjct: 659 ILPLQHGTY 685 Score = 18.9 bits (37), Expect = 2.7, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 11/18 (61%) Frame = +1 Query: 458 VFISSEVEELPLVCDRIL 475 VFIS PL+C ++L Sbjct: 3472 VFISITAMASPLICVQML 3525 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHF_ECOLI P77269 ABC transporter periplasmic-binding protein yphF (Precursor) (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = +1 Query: 157 NKIDQP 162 NKID+P Sbjct: 6850 NKIDKP 6867 Score = 16.5 bits (31), Expect = 8.4, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = -2 Query: 282 NAVFAQTLKVINKQADGE 299 NA+ +L +IN DG+ Sbjct: 6591 NAIKQ*SLTMINMTHDGD 6538 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHG_ECOLI P76585 Uncharacterized protein yphG (1093 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPHH_ECOLI P76586 Uncharacterized protein yphH (397 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 81 DWTLCLNVTPTSI 93 DW +N TPT++ Sbjct: 3463 DWRPGINSTPTNL 3425 Score = 16.5 bits (31), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/21 (28%), Positives = 8/21 (38%) Frame = +3 Query: 75 LIAPEGDWTLCLNVTPTSIEC 95 + + DWT C T C Sbjct: 2538 IFFTDFDWTYCAYRIATR*RC 2600 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJA_ECOLI P52143 Uncharacterized outer membrane protein ypjA (Precursor) (1526 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 13/23 (56%) Frame = +2 Query: 433 SLIVYTGGIAHGVNQETGSALVA 455 S + +T H +NQ+ ALVA Sbjct: 1433 SSVQFTDSKGHTLNQQQNDALVA 1501 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJB_ECOLI P76612 Uncharacterized protein ypjB (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.4, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = +1 Query: 86 FCSSTLTHN 94 +C+STL H Sbjct: 1219 YCTSTLRHR 1245 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJC_ECOLI P76613 Putative uncharacterized protein ypjC (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/25 (28%), Positives = 10/25 (40%) Frame = +1 Query: 45 ASETYRGALETLQKMMSECIYQEGN 69 A +YRG S C+ + G Sbjct: 4600 AYRSYRGMCWDAGSTCSSCV*RAGG 4674 Score = 16.2 bits (30), Expect = 4.8, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -3 Query: 33 AHSILKLICK 42 A +LKL CK Sbjct: 6263 ATGLLKLCCK 6234 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJD_ECOLI P64432 Inner membrane protein ypjD (263 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 1.2, Method: Compositional matrix adjust. Identities = 7/15 (46%), Positives = 12/15 (80%) Frame = +3 Query: 32 RMAIISAVIALVCHA 46 +M+ + AVI LVC++ Sbjct: 951 KMSPLQAVIRLVCNS 995 Score = 18.5 bits (36), Expect = 1.6, Method: Compositional matrix adjust. Identities = 7/20 (35%), Positives = 13/20 (65%) Frame = -1 Query: 209 KAVLSIVAWFVYIVLLWGHY 228 K +L+ + +Y+ LWGH+ Sbjct: 2545 KKILAALRT*LYLFSLWGHH 2486 Score = 16.2 bits (30), Expect = 8.0, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = -3 Query: 109 FMPNEYITHLEAT 121 F+P ITH T Sbjct: 5378 FLPATVITHYRQT 5340 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJF_ECOLI Q46953 Uncharacterized protein ypjF (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 3.6, Method: Composition-based stats. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +2 Query: 74 RIDHRGFSWQQ 84 R DHR W++ Sbjct: 3728 RNDHRYCRWKR 3760 Score = 15.0 bits (27), Expect = 6.4, Method: Composition-based stats. Identities = 7/21 (33%), Positives = 12/21 (57%) Frame = -3 Query: 9 SQAAKPCLSPVAVWQMLLTRL 29 +Q +KP L + + LTR+ Sbjct: 479 NQDSKPALFKASSTRF*LTRV 417 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJI_ECOLI P58095 Putative UPF0401 protein ypjI (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJJ_ECOLI P58033 Uncharacterized protein ypjJ (66 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.60 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.60, Method: Composition-based stats. Identities = 4/7 (57%), Positives = 5/7 (71%) Frame = -1 Query: 32 HGSVCHY 38 HG CH+ Sbjct: 5881 HGGSCHF 5861 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YPJK_ECOLI P52134 Uncharacterized protein ypjK (Precursor) (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQAA_ECOLI P0ADR0 Inner membrane protein yqaA (142 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.47, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 10/19 (52%) Frame = +2 Query: 113 GPVIFFLCLGKALRYVAVA 131 GP FFLCLG +V Sbjct: 3332 GP--FFLCLGGEFVHVGTK 3382 Score = 16.9 bits (32), Expect = 2.0, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = +1 Query: 95 PVVGDLLCLLAGW 107 P+V + C GW Sbjct: 1993 PIVSEAYCKAFGW 2031 Score = 16.9 bits (32), Expect = 2.0, Method: Compositional matrix adjust. Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 12/64 (18%) Frame = -2 Query: 61 LGRFF--PLRK----TSRWQEKATGWLKRY----GAVTLLLS--WMPVVGDLLCLLAGWM 108 RFF P R T+ + T R+ G VTLLLS + L ++ + Sbjct: 5976 FTRFFSNPFRVFFYLTAHFSFYRTFQFSRFCLTAGLVTLLLSRQFFLFYNRLTFCVSDFF 5797 Query: 109 RISW 112 R+S+ Sbjct: 5796 RVSF 5785 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQAB_ECOLI P77475 Phosphatase yqaB (3.1.3.-) (188 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQAE_ECOLI P0AE42 UPF0057 membrane protein yqaE (52 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 13 5.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.5 bits (23), Expect = 5.5, Method: Compositional matrix adjust. Identities = 10/33 (30%), Positives = 15/33 (45%) Frame = -1 Query: 2 GFWRIVITIILPPLGVLLGKGFGWAFIINILLT 34 GF+ + P L L +G F + ILL+ Sbjct: 3871 GFYNSQNLFVHPKLPRLNF*KWGARFALRILLS 3773 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQCA_ECOLI P65367 Uncharacterized protein yqcA (149 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.51 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.51, Method: Compositional matrix adjust. Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 5/44 (11%) Frame = +1 Query: 57 STTGQGDLPDSIVPLFQ-----GIKDSLGFQPNLRYGVIALGDS 95 S TG LP+++V L Q G+K++ G L ++GD+ Sbjct: 4 SRTGCDLLPETVVRLAQIPNIIGLKEATGNLERLSMIKPSVGDN 135 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQCC_ECOLI Q46919 Uncharacterized protein yqcC (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.6 bits (26), Expect = 8.4, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 5/11 (45%) Frame = +1 Query: 22 QHWRNDEPQPH 32 + W D P H Sbjct: 6922 EEWGGDSPFVH 6954 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQCE_ECOLI P77031 Inner membrane protein yqcE (425 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 7.8, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -3 Query: 371 YPIIGH 376 YP++GH Sbjct: 1316 YPVVGH 1299 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQCG_ECOLI C1P612 Uncharacterized protein yqcG (46 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 1.9, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 6/6 (100%) Frame = -2 Query: 12 HVKTFT 17 H++TFT Sbjct: 2607 HIRTFT 2590 Score = 13.5 bits (23), Expect = 5.8, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = -2 Query: 32 EYKITDAAVNLFI 44 E T A ++LFI Sbjct: 3876 ETASTTARISLFI 3838 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEB_ECOLI Q46808 Uncharacterized protein yqeB (541 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.9, Method: Compositional matrix adjust. Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%) Frame = +2 Query: 191 IAWLGLLASRRKVQLFLRQLR--EKGVAEEHIARLHAPVG 228 + WL LLA+ Q + RQ+ E + + RL+A G Sbjct: 536 VLWLMLLAACSTEQRYKRQVSGDEAYLNAPALKRLNASQG 655 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEC_ECOLI Q46809 Uncharacterized protein yqeC (256 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.20 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.20, Method: Compositional matrix adjust. Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 3/67 (4%) Frame = +1 Query: 19 RPTVISVVG--AGGKTSLLFWLAELLQASGRRVLITTTTHMF-MPTSHWPVVFCRDPAML 75 R V++++G GKTSLL + A+G IT + + T + V F P Sbjct: 6526 RAPVVTIMGHVDHGKTSLLDCIRSTKVAAGEAGGITQHIGAYHVETENGMVTFLDTPG-- 6699 Query: 76 PHASLTS 82 HA+ TS Sbjct: 6700 -HAAFTS 6717 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEF_ECOLI Q46939 Probable acetyl-CoA acetyltransferase (2.3.1.9) (Acetoacetyl-CoA thiolase) (393 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 2.6, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 10/20 (50%), Gaps = 1/20 (5%) Frame = -3 Query: 347 GHPIGASGCRILV-SLVHEM 365 HP+ RIL+ L H M Sbjct: 1421 NHPLATDSYRILI*DLAHLM 1362 Score = 16.9 bits (32), Expect = 7.1, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 18/34 (52%) Frame = -3 Query: 241 VTAGNASSINDGAAAVMMMSEAKARALNLPVLAR 274 +TA +SIN+ + + S + ++NLP R Sbjct: 353 LTAIGLASINNSLCSGIKRSFKRPASVNLPSATR 252 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEG_ECOLI P63340 Inner membrane transport protein yqeG (409 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.33 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.6 bits (44), Expect = 0.33, Method: Compositional matrix adjust. Identities = 11/34 (32%), Positives = 19/34 (55%) Frame = -3 Query: 41 FITALVAWPLTYWPHKALCQFILSSKTSAGEGIT 74 F+ + +W L+ L QF++ K+S EGI+ Sbjct: 3965 FLVHVFSWSLS------LMQFLMLQKSSHVEGIS 3882 Score = 20.4 bits (41), Expect = 0.74, Method: Compositional matrix adjust. Identities = 9/35 (25%), Positives = 14/35 (40%) Frame = +2 Query: 250 FSCLLSIPPSYIEAAKEEGVTILSALSMLPNAPAW 284 CL++ + K+EG +S L L W Sbjct: 6572 LHCLIAFVRPKLRQGKQEGSHSISGLITLKPKTGW 6676 Score = 19.2 bits (38), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = -1 Query: 49 PLTYWPHKALCQFILS 64 P T W H + C F+L Sbjct: 5410 PATLWLHLSCCSFLLQ 5363 Score = 18.1 bits (35), Expect = 3.3, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 7/13 (53%) Frame = -1 Query: 54 PHKALCQFILSSK 66 PH C F++ S Sbjct: 5884 PHGGSCHFVVESS 5846 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEH_ECOLI Q46941 Uncharacterized protein yqeH (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 28 0.002 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 27.7 bits (60), Expect = 0.002, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 14/27 (51%) Frame = -2 Query: 14 SCSMHCQIMPEESPRLQYCANSCFCMW 40 SCS +C I S +C +CF +W Sbjct: 4272 SCSRNCSITTARSASRTFCTITCFAVW 4192 Score = 16.5 bits (31), Expect = 4.5, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = +3 Query: 170 YQIAEVLDMD 179 YQ++ VLD++ Sbjct: 3528 YQVSAVLDVE 3557 Score = 15.8 bits (29), Expect = 8.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 8/15 (53%) Frame = -3 Query: 33 ANSCFCMWPEESSYF 47 AN C +W + YF Sbjct: 1619 ANFCISIWLQ*CDYF 1575 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEI_ECOLI Q46942 Uncharacterized protein yqeI (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.7, Method: Compositional matrix adjust. Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 6/37 (16%) Frame = +3 Query: 143 KNFNNKILKHIKSHLIMLSA------FVIGAYSAYWL 173 KN N K+ KS LI + V+G +S WL Sbjct: 3948 KNMNKKL----KSGLISIEKQEISRPSVVGKWSVKWL 4046 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEJ_ECOLI Q46943 Uncharacterized protein yqeJ (160 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 26 0.004 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 26.2 bits (56), Expect = 0.004, Method: Composition-based stats. Identities = 29/121 (23%), Positives = 50/121 (41%), Gaps = 25/121 (20%) Frame = +2 Query: 28 AEKMIYNETCTANWVIFNDQGRANLTIDF-------MYNKKNKTGTVALSGTWQQGNRES 80 A++ N+T T +W+ +N RA+ + F + + N+ V S QQ + Sbjct: 887 ADRQDANQTLTTDWIKWN---RADEDVPFAGRYQISVQQQGNQLALVVKSLGLQQ---QE 1048 Query: 81 KSIRRNIEYTWIENYDTAHL------------------TSKKVNKFEIMDQVDDDRLAQL 122 K + NIE I++Y+ A L + K+ + E+ DD L +L Sbjct: 1049KMVTSNIE---IQHYNRAMLNKLIEGLDKIRSNSNNAQNTDKIGRLEVQAARDDSALPRL 1219 Query: 123 I 123 I Sbjct: 1220I 1222 Score = 15.4 bits (28), Expect = 7.7, Method: Composition-based stats. Identities = 5/15 (33%), Positives = 8/15 (53%) Frame = -2 Query: 144 HAFILSIGNRAIMHC 158 H+F + N +HC Sbjct: 1749 HSFPIEGLNTLTIHC 1705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEK_ECOLI P77136 Uncharacterized protein yqeK (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 2.6, Method: Compositional matrix adjust. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 135 WICTRC 140 +IC RC Sbjct: 2060 FICARC 2043 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQEL_ECOLI C1P613 Uncharacterized protein yqeL (26 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQFA_ECOLI P67153 UPF0073 inner membrane protein yqfA (219 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 5.2, Method: Compositional matrix adjust. Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 4/28 (14%) Frame = +1 Query: 152 SLVVIYEMAVKLA-AGS---VTLLAVGG 175 V + E+A K+A GS T++ +GG Sbjct: 6292 ETVTVAELANKMAVKGSQVIKTMMKLGG 6375 Score = 16.2 bits (30), Expect = 5.6, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 11/26 (42%) Frame = +2 Query: 142 LVTYLAMGWLSLVVIYEMAVKLAAGS 167 T+ GW SLV K+A + Sbjct: 3056 FATFSDAGWSSLVARRAHNPKVAGSN 3133 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQFB_ECOLI P67603 UPF0267 protein yqfB (103 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQFE_ECOLI P64562 Putative uncharacterized protein yqfE (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.90, Method: Composition-based stats. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +2 Query: 30 NGELVRLFAPWSG 42 NG+ VRL + SG Sbjct: 4832 NGQNVRLVSQLSG 4870 Score = 15.0 bits (27), Expect = 3.5, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 10/19 (52%) Frame = +1 Query: 45 RPLYALFAGRKGMPAIARY 63 R LYA + R G +RY Sbjct: 5224 RGLYAGRSCRTGC*RFSRY 5280 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQFG_ECOLI C1P614 Uncharacterized protein yqfG (Precursor) (41 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQGA_ECOLI Q46831 Uncharacterized protein yqgA (235 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQGB_ECOLI P64567 Uncharacterized protein yqgB (43 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQGC_ECOLI P64570 Uncharacterized protein yqgC (71 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQGD_ECOLI P46879 Uncharacterized protein yqgD (83 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.4, Method: Composition-based stats. Identities = 3/5 (60%), Positives = 5/5 (100%) Frame = -2 Query: 24 WINIW 28 WI++W Sbjct: 6879 WISVW 6865 Score = 15.0 bits (27), Expect = 3.8, Method: Composition-based stats. Identities = 7/12 (58%), Positives = 8/12 (66%) Frame = +3 Query: 38 LFPLFFESCLIL 49 LFP +S LIL Sbjct: 4116 LFPPNLKSLLIL 4151 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQGE_ECOLI P0A8W5 UPF0301 protein yqgE (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 24 VYICEHNTN 32 V IC+HN + Sbjct: 858 VVICDHNVS 832 Score = 15.4 bits (28), Expect = 9.1, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 10/21 (47%) Frame = +1 Query: 44 ENLKIEGILEKLKITPEPRDE 64 ENL EK+ P+P + Sbjct: 2770 ENLSQPAKDEKISAPPKPSSD 2832 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQHA_ECOLI P67244 UPF0114 protein yqhA (164 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQHC_ECOLI Q46855 Uncharacterized HTH-type transcriptional regulator yqhC (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 6.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = -2 Query: 1 MLQNCAQSNCRIIPKKL 17 M + S+C IIP L Sbjct: 4389 MFSRGSISSCPIIPSAL 4339 Score = 16.5 bits (31), Expect = 6.6, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = +3 Query: 4 NCAQSNCRI 12 NCA ++CR+ Sbjct: 2361 NCACTDCRL 2387 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQHD_ECOLI Q46856 Alcohol dehydrogenase yqhD (1.1.1.-) (387 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 11/23 (47%) Frame = +2 Query: 233 KEPENYDVRANVMWAATQALNGL 255 K+ N ++ V W +NGL Sbjct: 5939 KKTRNGLLKKRVKWQQKMKVNGL 6007 Score = 17.3 bits (33), Expect = 5.0, Method: Compositional matrix adjust. Identities = 8/13 (61%), Positives = 8/13 (61%) Frame = +1 Query: 15 GKGAIAGLREQIP 27 G A GLR QIP Sbjct: 2962 GGSARLGLRVQIP 3000 Score = 16.5 bits (31), Expect = 9.7, Method: Compositional matrix adjust. Identities = 8/15 (53%), Positives = 9/15 (60%) Frame = +2 Query: 88 FLLAVGGGSVLDGTK 102 F L +GG V GTK Sbjct: 3338 FFLCLGGEFVHVGTK 3382 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQHG_ECOLI Q46858 Uncharacterized protein yqhG (Precursor) (308 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQHH_ECOLI P65298 Uncharacterized lipoprotein yqhH (Precursor) (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.6, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -3 Query: 43 LEQDMKALRPQ 53 + QD+ A RP+ Sbjct: 5255 VRQDLPAYRPR 5223 Score = 14.2 bits (25), Expect = 7.6, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = +1 Query: 71 QDYFDCLRCLR 81 Q C+RC R Sbjct: 1345 QP*LGCIRCAR 1377 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQIA_ECOLI P0A8Z7 Esterase yqiA (3.1.-.-) (193 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.094 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.094, Method: Compositional matrix adjust. Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 5/85 (5%) Frame = +2 Query: 52 ESIVLEHGGDSLGIVGSSLGGYYATWLSQCFMLPAVVVNPAVRPFELLTDYLGQNENPYT 111 ESI+L+ G ++ GI+G Q MLP + P R +L + + P Sbjct: 4313 ESIILDLGNNAEGIIG------------QEDMLPRENIRPGDRIRGILYEIRPEARGP-- 4450 Query: 112 GQQYVLESR-----HIYDLKVMQID 131 Q ++ SR ++ ++V +ID Sbjct: 4451 -QLFISRSRPEMLIELFRIEVPEID 4522 Score = 18.1 bits (35), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +3 Query: 145 TGDEVLDYRQAVA 157 TG+ V DYR+ A Sbjct: 1905 TGEAVRDYRKPSA 1943 Score = 17.7 bits (34), Expect = 2.0, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -3 Query: 87 VVVNPAVRPFE 97 VVVNP + P + Sbjct: 1043 VVVNPVISPLK 1011 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQIB_ECOLI P0ADU7 Uncharacterized protein yqiB (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.43 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.43, Method: Composition-based stats. Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 15/83 (18%) Frame = +2 Query: 29 NDAPGETVSYQVANAQYRLTIVESTRYTTLVTIEQ--TAPAI-------------SYWSL 73 +D P + V +A A+ +V+ T + +E+ +A AI S W L Sbjct: 4700 DDNPAQFVLNAMAPAEVASIVVDEDAKTMNIAVEEGNSAQAIGRNGQNVRLVSQLSGWEL 4879 Query: 74 PSMTVRLYHDAMVAEVCSSQQIF 96 MT+ + AE ++ +F Sbjct: 4880 NVMTINELKEKCQAETRTAIDMF 4948 Score = 19.2 bits (38), Expect = 0.49, Method: Composition-based stats. Identities = 8/12 (66%), Positives = 10/12 (83%) Frame = +2 Query: 21 QLRRLLPRNDAP 32 QLR L+PR+ AP Sbjct: 3578 QLRGLIPRS*AP 3613 Score = 16.2 bits (30), Expect = 3.7, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 3/17 (17%) Frame = +1 Query: 66 PAISYWSL---PSMTVR 79 PAI+ W+L S+T R Sbjct: 661 PAITAWNLRYCASITAR 711 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQIC_ECOLI Q46868 Uncharacterized protein yqiC (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQIG_ECOLI P76655 Putative outer membrane usher protein yqiG (Precursor) (821 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.86, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%) Frame = +2 Query: 204 FNNGKSQATNLDFPRIYLFRPI 225 F+ GKS T + RIY PI Sbjct: 3398 FSTGKSLGTQISRGRIYSRAPI 3463 Score = 20.4 bits (41), Expect = 1.4, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = +1 Query: 107 GCYPIEKEKQITTYLD 122 G Y +E E + T+LD Sbjct: 6643 GAYHVETENGMVTFLD 6690 Score = 19.6 bits (39), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/20 (30%), Positives = 13/20 (65%) Frame = +1 Query: 50 GKYSLSTLINNKRTPIHLDL 69 GK++ + +N + P+H +L Sbjct: 265 GKFTEAGRLNERLMPLHKEL 324 Score = 19.2 bits (38), Expect = 2.8, Method: Compositional matrix adjust. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = +1 Query: 468 TNHYTNYQNEKESYIVTF 485 T H Y E E+ +VTF Sbjct: 6631 TQHIGAYHVETENGMVTF 6684 Score = 17.7 bits (34), Expect = 9.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 6/10 (60%) Frame = +2 Query: 640 WNGSFTATRH 649 WN F T+H Sbjct: 1814 WNDCFQTTKH 1843 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQIH_ECOLI P77616 Uncharacterized fimbrial chaperone yqiH (Precursor) (249 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.29 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.29, Method: Compositional matrix adjust. Identities = 9/37 (24%), Positives = 19/37 (51%) Frame = +2 Query: 104 KDRETLFYFNVREIPPKTDKKNVMQVTMQHALKLFWR 140 K + ++ ++ +PP+ V+Q T+ L+WR Sbjct: 2588 KVKVRIWALHLERVPPQLCLDLVVQATL*PV*PLYWR 2698 Score = 20.0 bits (40), Expect = 0.57, Method: Compositional matrix adjust. Identities = 10/38 (26%), Positives = 18/38 (47%) Frame = +2 Query: 113 NVREIPPKTDKKNVMQVTMQHALKLFWRPKAIELEDDG 150 N+ PP + ++ + H L F RPK + + +G Sbjct: 6515 NLLYAPPSSPSWVMLIMVRLHCLIAFVRPKLRQGKQEG 6628 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -1 Query: 110 FYFNVREIP 118 FYF +IP Sbjct: 2164 FYFQTSQIP 2138 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQII_ECOLI P76656 Uncharacterized protein yqiI (Precursor) (354 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%), Gaps = 1/13 (7%) Frame = -3 Query: 137 NGY-KKPAVCSGG 148 +GY +KPAVC+ Sbjct: 2402 SGY*RKPAVCASA 2364 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQIJ_ECOLI P76657 Inner membrane protein yqiJ (209 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.9, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 12/26 (46%) Frame = -3 Query: 93 VWQSPLSNLFVVPVSLLFTIIAVHYT 118 VW ++ +VP+ F + HY Sbjct: 1217 VWVKRYRHVPLVPLGDRFCLCFEHYC 1140 Score = 15.8 bits (29), Expect = 7.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -2 Query: 178 GKIFTKGD 185 GK+ T+GD Sbjct: 2187 GKLITQGD 2164 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQIK_ECOLI P77306 Inner membrane protein yqiK (553 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 7.1, Method: Compositional matrix adjust. Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 6/79 (7%) Frame = +2 Query: 252 MTLEQEQQVKTRTAEQNXXXXXXXXXXXXXXXQTRILAERQIQETEIDR------EQAVR 305 +TLE Q++ A+QN + E QI+ DR +Q + Sbjct: 4061 ITLEAAQEISKEEAQQN--------TPISTESEIPTYIEDQIKSVVFDRITTQTAKQVIV 4216 Query: 306 SRKVEAEREVRIKEIEQQQ 324 + EAER V I++ +Q+ Sbjct: 4217 QKVREAERAVVIEQFREQE 4273 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJA_ECOLI P0AA63 Inner membrane protein yqjA (220 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.082 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.3 bits (46), Expect = 0.082, Method: Compositional matrix adjust. Identities = 11/28 (39%), Positives = 18/28 (64%) Frame = +2 Query: 187 QLMSCLMLLPVVLLVFGLAGSLVVLWKK 214 +++SC + L V L V LAG + +W+K Sbjct: 1973 KMISCTIPLSVRLTVKPLAGLVKRIWRK 2056 Score = 16.9 bits (32), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 79 ASLGCWVSYI 88 A+L CW++ I Sbjct: 6824 AALACWMASI 6795 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJB_ECOLI P42615 Uncharacterized protein yqjB (127 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJC_ECOLI P42616 Protein yqjC (Precursor) (122 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJD_ECOLI P64581 Uncharacterized protein yqjD (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJE_ECOLI P64585 Inner membrane protein yqjE (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJF_ECOLI P42619 Inner membrane protein yqjF (130 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJG_ECOLI P42620 Uncharacterized protein yqjG (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = -1 Query: 254 VTHFKCDKHRISDYLN 269 +T F C HR ++N Sbjct: 4810 ITFFNCYVHRFCVFVN 4763 Score = 16.9 bits (32), Expect = 6.5, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 123 ADPHYSGRV 131 + PH SGR+ Sbjct: 6938 SPPHSSGRI 6912 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJH_ECOLI Q46871 Uncharacterized protein yqjH (254 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 11/57 (19%) Frame = -3 Query: 21 TVLRVERISAGFQRIVLGGEALDGFTSRGFDDHSKLFF-----------PQPDAHFV 66 TVL R ++ I + + D F + +DH LF PQP HFV Sbjct: 1649 TVLAFPRYNSANFCISIWLQ*CDYF*LKIKEDHRFLFILHHFDSMQRVAPQPAHHFV 1479 Score = 16.5 bits (31), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 9/14 (64%) Frame = -2 Query: 184 YLAHLDGFNIEWLA 197 YLA DGF + ++ Sbjct: 3708 YLATYDGFALLYVT 3667 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJI_ECOLI P64588 Uncharacterized protein yqjI (207 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 9.1, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -3 Query: 5 HEGCCKHE 12 H+G C HE Sbjct: 4400 HQGVCFHE 4377 Score = 15.4 bits (28), Expect = 9.8, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 10/18 (55%) Frame = +1 Query: 129 EQGAQWLEENREQVEMIE 146 E +W E EQ+E+ + Sbjct: 5986 ENEGKWPEPIAEQIELTD 6039 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YQJK_ECOLI Q47710 Uncharacterized protein yqjK (99 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.99 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.99, Method: Composition-based stats. Identities = 7/21 (33%), Positives = 10/21 (47%) Frame = +2 Query: 40 DRRWNMLLSLRSWALVGSSVM 60 DR+ + R W +V VM Sbjct: 3986 DRKTGDFETFRRWKVVSEVVM 4048 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAH_ECOLI P42913 Uncharacterized fimbrial-like protein yraH (Precursor) (194 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.0, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 12/15 (80%) Frame = -1 Query: 165 LIAYYVSTVVPSEIT 179 L + ++STV PS+++ Sbjct: 3526 LTSAHISTVTPSQLS 3482 Score = 18.1 bits (35), Expect = 1.4, Method: Compositional matrix adjust. Identities = 6/10 (60%), Positives = 8/10 (80%) Frame = -3 Query: 85 HDNGNVEASF 94 HD+ +EASF Sbjct: 5099 HDHAALEASF 5070 Score = 16.9 bits (32), Expect = 2.9, Method: Composition-based stats. Identities = 6/10 (60%), Positives = 7/10 (70%) Frame = -1 Query: 103 NGTVPNFPNL 112 NG+ NFP L Sbjct: 4297 NGSCNNFPFL 4268 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 8/11 (72%) Frame = -2 Query: 65 RSPKIPFTIPL 75 R+P+IP P+ Sbjct: 4644 RAPRIPTHAPI 4612 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAI_ECOLI P42914 Uncharacterized fimbrial chaperone yraI (Precursor) (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 4.4, Method: Compositional matrix adjust. Identities = 7/33 (21%), Positives = 13/33 (39%) Frame = +2 Query: 40 KEAALPVANKGAETPYLLQSWVDNIDGKSRAPF 72 + +LP+A++ L W+ PF Sbjct: 866 QNESLPIADRQDANQTLTTDWIKWNRADEDVPF 964 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAJ_ECOLI P42915 Uncharacterized outer membrane usher protein yraJ (Precursor) (838 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 2.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 2.2, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +2 Query: 166 DARGYVSPSRWDDGIPT 182 D + VSP +W+D T Sbjct: 1784 DLKLRVSPHKWNDCFQT 1834 Score = 19.6 bits (39), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 9/13 (69%) Frame = +2 Query: 701 GYAVVPYLTTYQE 713 G+ P+LTTYQ Sbjct: 2303 GFR*RPFLTTYQR 2341 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAK_ECOLI P43319 Uncharacterized fimbrial-like protein yraK (Precursor) (363 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 22.7 bits (47), Expect = 0.12, Method: Compositional matrix adjust. Identities = 9/23 (39%), Positives = 15/23 (65%) Frame = -1 Query: 221 SCKINQGDVIKVNFGFINGQKFT 243 +C++N D + VNF + N +KF Sbjct: 4552 NCRLN-FDQLFVNFWYFNAEKFN 4487 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAL_ECOLI P67087 UPF0011 protein yraL (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.47 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.47, Method: Compositional matrix adjust. Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%) Frame = +3 Query: 173 HRLLDSLEDIVAVLGESRYVVL--ARELTKTWETIHGAPVGELL 214 RLL + ED LGE + L A + + W+ I A GE++ Sbjct: 3606 ERLLFTAEDYTDYLGERINLTLRIAMQNRRKWQGIIKAVDGEMI 3737 Score = 16.9 bits (32), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 84 GQNIALVS 91 GQN+ LVS Sbjct: 4835 GQNVRLVS 4858 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAM_ECOLI P45464 Uncharacterized protein yraM (678 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 23 0.12 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 23.5 bits (49), Expect = 0.12, Method: Compositional matrix adjust. Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%) Frame = -1 Query: 619 RMYAMGVDAWS-LANHFSQMRQVQGFEINGNTGSLTANP 656 R+Y+ W A+HFS+ Q+ G G SLTA+P Sbjct: 2023 RLYSKPH*QWDRAADHFSKTAQIMGDLALGFL*SLTASP 1907 Score = 17.7 bits (34), Expect = 7.9, Method: Compositional matrix adjust. Identities = 7/14 (50%), Positives = 9/14 (64%) Frame = -2 Query: 421 YFALSPEDEARDAA 434 Y+ALSP + AA Sbjct: 5361 YYALSPNQQILRAA 5320 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAN_ECOLI P45465 UPF0102 protein yraN (131 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.0, Method: Composition-based stats. Identities = 12/39 (30%), Positives = 22/39 (56%) Frame = +2 Query: 76 AAASVTRSKQHKLLQTARLWLARHNGSFDTVDCRFDVVA 114 A A+ T+ K + ++ R+ + R G F+T R+ VV+ Sbjct: 3926 ALATATKKKHEQEIEV-RVNIDRKTGDFETFR-RWKVVS 4036 Score = 16.5 bits (31), Expect = 2.6, Method: Compositional matrix adjust. Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 2/30 (6%) Frame = +1 Query: 33 GKGLRFIAANVNERGGEIDLIMR--EGRTT 60 G+G+ + ANV GG +L R EG+ T Sbjct: 190 GQGIISVTANV-AAGGMTELCQRVAEGKFT 276 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAP_ECOLI P64596 Uncharacterized protein yraP (Precursor) (191 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 22 0.095 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.9 bits (45), Expect = 0.095, Method: Compositional matrix adjust. Identities = 9/19 (47%), Positives = 14/19 (73%) Frame = -2 Query: 57 ALSKDEQIKKEARINVTAY 75 ALS ++QI + A IN+ A+ Sbjct: 5355 ALSPNQQILRAAIINLPAF 5299 Score = 16.2 bits (30), Expect = 4.8, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 7/7 (100%) Frame = +1 Query: 85 SPNAELS 91 +PNAEL+ Sbjct: 5665 TPNAELA 5685 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAQ_ECOLI P45468 UPF0718 protein yraQ (346 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 8.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 8.9, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = +3 Query: 26 IAGLWYVKW 34 + G W VKW Sbjct: 4017 VVGKWSVKW 4043 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRAR_ECOLI P45469 Uncharacterized protein yraR (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.49 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.49, Method: Compositional matrix adjust. Identities = 12/38 (31%), Positives = 15/38 (39%) Frame = +2 Query: 67 FCCLGTTRREAGSKEAFIHADYTLVVDTALTGRRLGAQ 104 F CLG F+H + D TG+ LG Q Sbjct: 3341 FLCLGG---------EFVHVGTKINRDNFSTGKSLGTQ 3427 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBA_ECOLI P0A9W6 Uncharacterized protein yrbA (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 3.8, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 8/14 (57%) Frame = +1 Query: 1 MENNEIQSVLMNAL 14 M NN+ +MN L Sbjct: 1747 MINNKFNHFIMNRL 1788 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBB_ECOLI P64602 Uncharacterized protein yrbB (97 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.0, Method: Composition-based stats. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = -2 Query: 39 ITCIDLSRVSRV 50 I+C S +SRV Sbjct: 4086 ISCAASSVISRV 4051 Score = 14.6 bits (26), Expect = 6.8, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 8/12 (66%) Frame = +2 Query: 5 LSWMQTGDTLAL 16 +S Q G+ LAL Sbjct: 980 ISVQQQGNQLAL 1015 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBC_ECOLI P0ADV7 Protein yrbC (Precursor) (211 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 2.9, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 12/16 (75%) Frame = +2 Query: 195 AQLKSISQQKITLEEK 210 +QLK S+QK+ ++ K Sbjct: 5741 SQLKQKSRQKVKVQRK 5788 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBD_ECOLI P64604 Uncharacterized protein yrbD (Precursor) (183 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.9, Method: Compositional matrix adjust. Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 5/33 (15%) Frame = -3 Query: 88 QRYNHIP-----DTSSLSIRTSGLLGEQYLALN 115 +RY H+P D L YL+L Sbjct: 1208 KRYRHVPLVPLGDRFCLCFEHYCYYCGFYLSLQ 1110 Score = 16.2 bits (30), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +2 Query: 71 ITLDPKT 77 ITL PKT Sbjct: 6650 ITLKPKT 6670 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBE_ECOLI P64606 UPF0393 inner membrane protein yrbE (260 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 10/27 (37%), Positives = 14/27 (51%) Frame = +3 Query: 186 WSAMQNAVDWRMDLVNCLIKSVVFAIT 212 W + AVD M +V K VFA++ Sbjct: 3699 WQGIIKAVDGEMIIVTVDGKDEVFALS 3779 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBF_ECOLI P63386 Uncharacterized ABC transporter ATP-binding protein yrbF (269 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.34 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.34, Method: Compositional matrix adjust. Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 13/45 (28%) Frame = -1 Query: 92 QSGALFTDMNVFD---------NVAYPL----REHTQLPAPLLHS 123 GALF + +FD ++A+ L R H + PA L + Sbjct: 4987 NCGALFINFKMFDKHINRCTGFSLAFFLKLVDRHHIKFPATQLRN 4853 Score = 19.6 bits (39), Expect = 0.72, Method: Compositional matrix adjust. Identities = 10/22 (45%), Positives = 12/22 (54%) Frame = +1 Query: 33 RGKITAIMGPSGIGKTTLLRLI 54 R + IMG GKT+LL I Sbjct: 6526 RAPVVTIMGHVDHGKTSLLDCI 6591 Score = 16.2 bits (30), Expect = 8.6, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +2 Query: 130 EAVGLRGAAKLMPSELSG 147 +A+G G + S+LSG Sbjct: 4817 QAIGRNGQNVRLVSQLSG 4870 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBG_ECOLI P45394 Inner membrane protein yrbG (325 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBL_ECOLI P64610 Uncharacterized protein yrbL (210 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRBN_ECOLI C1P618 Uncharacterized protein yrbN (26 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.50 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.50, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = +1 Query: 1 MKIADQFHDELCRL 14 + + D+F + CRL Sbjct: 2164 ITLGDEFSPDGCRL 2205 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRDA_ECOLI P0A9W9 Protein yrdA (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 4.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 4.4, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +2 Query: 155 DEEKAGLRYSANNYVKW 171 D+EKAG A + W Sbjct: 5291 DDEKAGKLIMAARNICW 5341 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRDB_ECOLI P45795 Uncharacterized protein yrdB (85 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRDD_ECOLI P45771 Uncharacterized protein yrdD (180 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 5.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 5.8, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 9/15 (60%) Frame = +1 Query: 96 IDKPDETAITCPQCR 110 +DK + + CP CR Sbjct: 925 LDKMEPSR*RCPLCR 969 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRFA_ECOLI P45750 Uncharacterized protein yrfA (134 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.3, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = -3 Query: 56 DGQKKWRRV 64 D K+WRRV Sbjct: 1256 DVAKRWRRV 1230 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRFB_ECOLI P45751 Uncharacterized protein yrfB (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Composition-based stats. Identities = 7/17 (41%), Positives = 9/17 (52%) Frame = +2 Query: 96 GGELALKTLWEAVPSAF 112 GGE LW+ P+ F Sbjct: 4670 GGERIDIVLWDDNPAQF 4720 Score = 16.9 bits (32), Expect = 2.0, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 7/8 (87%) Frame = -2 Query: 19 CWAFWLLM 26 C+A W++M Sbjct: 4206 CFAVWVVM 4183 Score = 16.5 bits (31), Expect = 2.6, Method: Compositional matrix adjust. Identities = 10/45 (22%), Positives = 18/45 (40%) Frame = +1 Query: 82 LSGAQLVSWHPSAQGGELALKTLWEAVPSAFTRLAERNVSVSRFS 126 LSG + +GG+ + T L +R V+ +F+ Sbjct: 145 LSGDDATGFDFIQKGGQGIISVTANVAAGGMTELCQR-VAEGKFT 276 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRFC_ECOLI P64634 Uncharacterized protein yrfC (179 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 6.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 6/8 (75%) Frame = -1 Query: 1 MNPPINFL 8 +NP NFL Sbjct: 3982 INPDFNFL 3959 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRFD_ECOLI P45753 Uncharacterized protein yrfD (259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.54 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.54, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 10/16 (62%) Frame = -1 Query: 183 NEQWLWATRYSWGRKL 198 N QWL TR WG +L Sbjct: 94 NFQWLLLTR*YWGFEL 47 Score = 17.3 bits (33), Expect = 3.8, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -3 Query: 82 LQRSFPRPS 90 ++RSF RP+ Sbjct: 305 IKRSFKRPA 279 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRFG_ECOLI P64636 Uncharacterized protein yrfG (222 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.46 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.0 bits (40), Expect = 0.46, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 12/17 (70%) Frame = -1 Query: 43 NGVTPQEAMEYMRQQYH 59 NGV E+++ ++ Q+H Sbjct: 2407 NGVDTNESLQSVQAQFH 2357 Score = 19.2 bits (38), Expect = 0.84, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = +3 Query: 69 CLDYWSEQLGLDICAM 84 CL W E + + C M Sbjct: 4656 CLTSWGENVLISFCGM 4703 Score = 16.5 bits (31), Expect = 4.4, Method: Compositional matrix adjust. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = +1 Query: 34 LVPETWGA 41 ++PE WG Sbjct: 6913 ILPEEWGG 6936 Score = 15.8 bits (29), Expect = 8.0, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 8/9 (88%) Frame = -1 Query: 138 LLLSTHTFG 146 +LLS ++FG Sbjct: 4369 ILLSNYSFG 4343 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRHA_ECOLI P46856 Putative uncharacterized protein yrhA (138 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.6, Method: Compositional matrix adjust. Identities = 5/8 (62%), Positives = 7/8 (87%) Frame = -3 Query: 55 ILFKNQPD 62 ILF N+P+ Sbjct: 2165 ILFSNKPN 2142 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRHB_ECOLI P46857 Uncharacterized protein yrhB (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.9, Method: Composition-based stats. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = -3 Query: 31 SQGWYFC 37 SQG+Y C Sbjct: 3422 SQGFYRC 3402 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YRHD_ECOLI P58037 Uncharacterized protein yrhD (51 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 0.92 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 0.92, Method: Compositional matrix adjust. Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 7/43 (16%) Frame = -1 Query: 15 DRRHVVSILAEIANGYDDFND-------MLIYLEFYPNHKILI 50 D V+SI+A A+ FN +++YL+ NH L+ Sbjct: 1168 DFVCVLSIIAITADFI*AFNQFIQHSTIVMLYLDIRSNHFFLL 1040 Score = 15.8 bits (29), Expect = 1.2, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -3 Query: 16 RRHVVSILAE 25 +RH+ ILA+ Sbjct: 719 QRHLAVILAQ 690 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YSAA_ECOLI P56256 Putative electron transport protein ysaA (157 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 3.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 3.9, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 5/10 (50%) Frame = -2 Query: 81 HIFVEQTRCI 90 H F Q RC Sbjct: 6435 HFFSNQLRCF 6406 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YSAB_ECOLI Q2M7M3 Uncharacterized lipoprotein ysaB (Precursor) (99 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.53 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.53, Method: Composition-based stats. Identities = 9/27 (33%), Positives = 14/27 (51%) Frame = +2 Query: 69 GSYEMRGYTFRKEQFVCSFDADGHFLH 95 GSY+++ F V D+ GH L+ Sbjct: 1394 GSYQLQVGDFGNRSSVQFTDSKGHTLN 1474 Score = 16.2 bits (30), Expect = 2.4, Method: Composition-based stats. Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 1/26 (3%) Frame = +1 Query: 75 GYTFRKEQFVCSF-DADGHFLHLSMR 99 Y E + +F D GH SMR Sbjct: 6646 AYHVETENGMVTFLDTPGHAAFTSMR 6723 Score = 16.2 bits (30), Expect = 2.6, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -3 Query: 15 LVGCSIPSP 23 L CSIP P Sbjct: 3095 LPSCSIPRP 3069 Score = 15.0 bits (27), Expect = 5.2, Method: Compositional matrix adjust. Identities = 4/10 (40%), Positives = 5/10 (50%) Frame = -3 Query: 84 VCSFDADGHF 93 +CS GH Sbjct: 6026 ICSAMGSGHL 5997 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YSHB_ECOLI C1P620 Uncharacterized protein yshB (36 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 4.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 4.5, Method: Composition-based stats. Identities = 6/16 (37%), Positives = 8/16 (50%) Frame = +1 Query: 19 PQTAVAAVLCAAMIGL 34 P+T V +IGL Sbjct: 28 PETVVRLAQIPNIIGL 75 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTCA_ECOLI A5A630 Uncharacterized protein ytcA (Precursor) (91 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFA_ECOLI P39309 Putative uncharacterized protein ytfA (108 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.8, Method: Composition-based stats. Identities = 8/17 (47%), Positives = 9/17 (52%) Frame = +1 Query: 50 QVNINIAALGGYYLINQ 66 QV + LGG INQ Sbjct: 6343 QVIKTMMKLGGMATINQ 6393 Score = 15.4 bits (28), Expect = 5.1, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 17/36 (47%) Frame = +2 Query: 65 NQHTLGLVYHISMVSPQALEARRKVIKETILSWLLV 100 N HT+G + P + R K+ T+L L++ Sbjct: 1577 NNHTIGAILRCKN-*PSCIAERLKL--STLLKILII 1675 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFB_ECOLI P39310 Uncharacterized protein ytfB (212 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.80, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 9/14 (64%) Frame = -2 Query: 5 FELKPTLEKVWHAP 18 F + L+++WH P Sbjct: 6819 FSMLDGLDRLWHDP 6778 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFF_ECOLI P39314 Inner membrane protein ytfF (324 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.3, Method: Compositional matrix adjust. Identities = 8/26 (30%), Positives = 14/26 (53%) Frame = +2 Query: 123 LAWGKLAPALICIGIGLACVNIAELN 148 + W +L PAL IG+ + + + N Sbjct: 1241 IVWQRLPPALAKIGMTVTKRDRQQGN 1318 Score = 18.1 bits (35), Expect = 2.7, Method: Compositional matrix adjust. Identities = 6/26 (23%), Positives = 14/26 (53%) Frame = -1 Query: 169 SVVCWAWYALRNARWLRENPDKHPMM 194 +++ W + +RN + +N HP + Sbjct: 3907 NLLTWKGFLIRNGFYNSQNLFVHPKL 3830 Score = 17.3 bits (33), Expect = 4.4, Method: Compositional matrix adjust. Identities = 7/10 (70%), Positives = 8/10 (80%) Frame = -2 Query: 104 LPVVIPVFAN 113 L VIP+FAN Sbjct: 1296 LVTVIPIFAN 1267 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFG_ECOLI P39315 Uncharacterized oxidoreductase ytfG (1.-.-.-) (286 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.40 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.40, Method: Compositional matrix adjust. Identities = 10/35 (28%), Positives = 16/35 (45%) Frame = +1 Query: 17 ESLMKTVPASQIVAIVRNPAKAQALAAQGITVRQA 51 E+L+K + I ++RN + GIT Q Sbjct: 1837 EALVKRLEMIPIECVIRNRTAGSLVKRLGITENQV 1941 Score = 18.9 bits (37), Expect = 1.3, Method: Compositional matrix adjust. Identities = 7/16 (43%), Positives = 10/16 (62%) Frame = -1 Query: 134 LLRNGWYSENYLASAP 149 L+RNG+Y+ L P Sbjct: 3883 LIRNGFYNSQNLFVHP 3836 Score = 17.3 bits (33), Expect = 3.5, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 14/23 (60%) Frame = -2 Query: 127 DSGIVYTLLRNGWYSENYLASAP 149 + ++ TLL + W S + A++P Sbjct: 6264 SNWLIETLL*SAWLSFAFTANSP 6196 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFH_ECOLI P0ACN2 Uncharacterized HTH-type transcriptional regulator ytfH (126 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.0, Method: Composition-based stats. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +3 Query: 24 EVLKHVTSRW 33 E+ +H T RW Sbjct: 2937 EIGRHATLRW 2966 Score = 15.0 bits (27), Expect = 6.3, Method: Composition-based stats. Identities = 7/16 (43%), Positives = 9/16 (56%) Frame = +3 Query: 39 VALREGTHRFSDLRRK 54 +ALR FSD R + Sbjct: 2412 IALRLFAIFFSDARNR 2459 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFI_ECOLI P39317 Uncharacterized protein ytfI (312 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.0, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 11/17 (64%) Frame = -3 Query: 96 EYTMTLRGSGFEYEEIP 112 E + R SG+E +E+P Sbjct: 3140 EPDLNQRPSGYEPDELP 3090 Score = 17.3 bits (33), Expect = 4.7, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 9/10 (90%) Frame = -1 Query: 160 QAIGDVSLGY 169 Q +GD++LG+ Sbjct: 1960 QIMGDLALGF 1931 Score = 16.2 bits (30), Expect = 8.3, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 9/12 (75%) Frame = +3 Query: 22 YTKTHSNNFFNN 33 YTK + ++F+N Sbjct: 177 YTKRRARDYFSN 212 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFJ_ECOLI P39187 Uncharacterized protein ytfJ (Precursor) (184 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.1, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = -3 Query: 21 HQFETGQRVPP 31 H F++ QRV P Sbjct: 1532 HHFDSMQRVAP 1500 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFK_ECOLI P0ADE2 Uncharacterized protein ytfK (68 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFL_ECOLI P0AE45 UPF0053 inner membrane protein ytfL (447 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 1.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 1.6, Method: Compositional matrix adjust. Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 4/54 (7%) Frame = +1 Query: 56 MFFTVVQIGLNAVAIL----GGIVGDAAFSPAFHSLFSRYMSAELSEQLSFILS 105 +FF ++ IGL A+ +L G +G + + A +LF S +++ IL+ Sbjct: 2536 VFFLLISIGLIALIVLQQGKGADMGASFGAGASSTLFGSSGSGNFMTRMTAILA 2697 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFM_ECOLI P0ADE4 Uncharacterized protein ytfM (Precursor) (577 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 25 0.043 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 25.0 bits (53), Expect = 0.043, Method: Compositional matrix adjust. Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 10/61 (16%) Frame = -2 Query: 277 DVGPRVKATWKKPWMNSYGHSL-TTSTSISAPEQTLD---------FSYKMPLLKNPLEQ 326 D G R+ A + G S+ +S SIS E+ ++ SYK+PL+++P Sbjct: 4566 DAGSRIAALISINSSSISGTSMRKSSISISGRERLINNWGPRASGRISYKIPLMRSPGRM 4387 Query: 327 Y 327 + Sbjct: 4386 F 4384 Score = 20.8 bits (42), Expect = 0.83, Method: Compositional matrix adjust. Identities = 11/42 (26%), Positives = 19/42 (45%) Frame = +1 Query: 263 RTENTIETGVGYSTDVGPRVKATWKKPWMNSYGHSLTTSTSI 304 R EN +E + D+G ++ + P + GH TS+ Sbjct: 6454 RRENELEEALMSDRDMGVAGESALRAPVVTIMGHVDHGKTSL 6579 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFN_ECOLI P39321 Uncharacterized protein ytfN (1259 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 9.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 9.1, Method: Compositional matrix adjust. Identities = 4/16 (25%), Positives = 12/16 (75%) Frame = +2 Query: 439 QQAISWRGELTLNGIN 454 ++ + W+ ++ +NG+N Sbjct: 5963 KKRVKWQQKMKVNGLN 6010 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFP_ECOLI P0AE48 UPF0131 protein ytfP (113 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.96 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 0.96, Method: Composition-based stats. Identities = 7/20 (35%), Positives = 12/20 (60%) Frame = -2 Query: 90 MYVYQRPVDGLKLIESGDWL 109 +++ Q G KLI GD++ Sbjct: 2217 LFIPQATAIGGKLITQGDFI 2158 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFQ_ECOLI P39325 ABC transporter periplasmic-binding protein ytfQ (Precursor) (318 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.52 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.52, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 11/21 (52%) Frame = -2 Query: 238 PGKDILTGSIDGVPDIYKAMM 258 PG+ GSI P I A++ Sbjct: 4398 PGRMFSRGSISSCPIIPSALL 4336 Score = 17.3 bits (33), Expect = 3.9, Method: Compositional matrix adjust. Identities = 10/20 (50%), Positives = 12/20 (60%) Frame = +1 Query: 45 AKSEAEKRGITLKIADGQQK 64 AKSE+ K KIAD + K Sbjct: 5764 AKSESAKEANAKKIADTKSK 5823 Score = 17.3 bits (33), Expect = 4.9, Method: Compositional matrix adjust. Identities = 12/52 (23%), Positives = 24/52 (46%) Frame = +2 Query: 191 FTRSKGKEVMESFIKAENNGKNICMVYAHNDDMVIGAIQAIKEAGLKPGKDI 242 F +GK V + K + ++I + +N + +IG + ++PG I Sbjct: 4259 FREQEGKIVTATVKKV--SRESIILDLGNNAEGIIGQEDMLPRENIRPGDRI 4408 Score = 16.9 bits (32), Expect = 4.9, Method: Compositional matrix adjust. Identities = 8/14 (57%), Positives = 10/14 (71%) Frame = -3 Query: 113 SIDVKDKSLYMTTV 126 SID D +L +TTV Sbjct: 3728 SIDSLDDTLPLTTV 3687 Score = 16.9 bits (32), Expect = 6.2, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = +1 Query: 93 WEPVLKEAKDAEI 105 WE + + AKD +I Sbjct: 2767 WENLSQPAKDEKI 2805 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFR_ECOLI Q6BEX0 Uncharacterized ABC transporter ATP-binding protein ytfR (500 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.55 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.55, Method: Compositional matrix adjust. Identities = 12/46 (26%), Positives = 23/46 (50%) Frame = -3 Query: 406 GNQQKVLLSRWLLTRPQFLILDEPTRGIDVGAHAEIIRLIETLCAD 451 G Q V + W L+ QFL+L + + + +++ E+LC+ Sbjct: 3974 GLQFLVHVFSWSLSLMQFLMLQKSSHVEGISH*KRLLQQPESLCSS 3837 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTFT_ECOLI P39328 Inner membrane ABC transporter permease protein ytfT (341 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTHA_ECOLI A8DYQ1 Uncharacterized protein ythA (41 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 4.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 13.9 bits (24), Expect = 4.2, Method: Composition-based stats. Identities = 8/24 (33%), Positives = 12/24 (50%) Frame = +1 Query: 4 NFIFDNLIILAVPFMIKTSLKTNL 27 NF+ ILA F I + + N+ Sbjct: 2665 NFMTRMTAILATLFFIVSLVLGNM 2736 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YTJA_ECOLI Q2M5U1 UPF0391 membrane protein ytjA (53 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAA_ECOLI Q9JMT9 Uncharacterized protein yuaA (146 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 3.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 3.2, Method: Compositional matrix adjust. Identities = 5/13 (38%), Positives = 6/13 (46%) Frame = +2 Query: 16 NWKCKLFLTPPKS 28 W+ L PP S Sbjct: 6503 EWRVNLLYAPPSS 6541 Score = 15.8 bits (29), Expect = 5.3, Method: Compositional matrix adjust. Identities = 4/12 (33%), Positives = 7/12 (58%) Frame = -1 Query: 133 NNLPGFIFIPYW 144 + P F +P+W Sbjct: 250 DKAPSFHLLPHW 215 Score = 15.8 bits (29), Expect = 5.4, Method: Compositional matrix adjust. Identities = 9/25 (36%), Positives = 11/25 (44%) Frame = +3 Query: 20 KLFLTPPKSFWGTTHAYNFCPIHFL 44 KL LT WG +FC + L Sbjct: 4650 KLCLTS----WGENVLISFCGMIIL 4712 Score = 15.4 bits (28), Expect = 7.5, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -2 Query: 139 IFIPYW 144 IF+P W Sbjct: 3384 IFVPTW 3367 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAB_ECOLI Q9JMT8 Uncharacterized HTH-type transcriptional regulator yuaB (353 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 4.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 4.0, Method: Compositional matrix adjust. Identities = 6/8 (75%), Positives = 7/8 (87%) Frame = +2 Query: 53 IKTVSCQK 60 + TVSCQK Sbjct: 6902 LSTVSCQK 6925 Score = 16.5 bits (31), Expect = 7.7, Method: Compositional matrix adjust. Identities = 7/18 (38%), Positives = 11/18 (61%) Frame = +3 Query: 98 NSSVLPVVSSKGESMAHY 115 ++ + VVS KG + HY Sbjct: 1605 DAKISRVVSRKG*NCLHY 1658 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAC_ECOLI Q9JMT7 Uncharacterized protein yuaC (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAD_ECOLI Q9JMT6 Uncharacterized membrane protein yuaD (187 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 8.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 8.1, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 9/21 (42%) Frame = -1 Query: 119 LCEKMILNGELYGECCCSTLD 139 LC K E+ CS +D Sbjct: 3427 LCPKAFTGAEIISVNFCSNVD 3365 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAE_ECOLI Q9JMT5 Uncharacterized protein yuaE (Precursor) (137 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 1.3, Method: Compositional matrix adjust. Identities = 11/31 (35%), Positives = 19/31 (61%) Frame = +2 Query: 38 NTQLKIIPRSQEKIQAQSQCSRSFSLLQKLN 68 +QLK R +K++ Q + +R SL QK++ Sbjct: 5738 KSQLKQKSR--QKVKVQRKLTRKKSLTQKVS 5824 Score = 16.5 bits (31), Expect = 2.6, Method: Composition-based stats. Identities = 5/22 (22%), Positives = 12/22 (54%) Frame = -3 Query: 43 IIPRSQEKIQAQSQCSRSFSLL 64 I+PR + + + C R +++ Sbjct: 764 IVPRVELVAECLTVCQRHLAVI 699 Score = 15.4 bits (28), Expect = 5.5, Method: Compositional matrix adjust. Identities = 6/17 (35%), Positives = 11/17 (64%), Gaps = 2/17 (11%) Frame = +3 Query: 13 SCAVFM--LSGCSSNRF 27 +C V++ + CS NR+ Sbjct: 6699 ACCVYINACTRCSGNRY 6749 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAF_ECOLI Q9JMT4 Uncharacterized membrane protein yuaF (200 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 1.2, Method: Compositional matrix adjust. Identities = 14/47 (29%), Positives = 20/47 (42%) Frame = -2 Query: 34 KIYDLRFFKIEDVAYKLIQLFKERRKENIIFLCSDRFIHSKEKPRNI 80 ++Y IED +F + + I LCSD I + RNI Sbjct: 2952 RVYQFHHLGIED------NIFLDH*SQFKISLCSDTKISTSLSLRNI 2830 Score = 15.8 bits (29), Expect = 6.7, Method: Compositional matrix adjust. Identities = 5/14 (35%), Positives = 10/14 (71%) Frame = +2 Query: 86 KDSIRNWSRHLKKL 99 K +R W+ HL+++ Sbjct: 2588 KVKVRIWALHLERV 2629 Score = 15.4 bits (28), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 7/15 (46%) Frame = -1 Query: 16 EQLLHEKYFDDRRYC 30 LLH+ R YC Sbjct: 6199 PALLHDLLLTRRVYC 6155 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAG_ECOLI Q9JMT2 Uncharacterized protein yuaG (84 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.80 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 0.80, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 6/9 (66%) Frame = -1 Query: 49 CIHPSGRWC 57 CI P RWC Sbjct: 646 CIEPF*RWC 620 Score = 16.5 bits (31), Expect = 1.3, Method: Composition-based stats. Identities = 4/5 (80%), Positives = 4/5 (80%) Frame = +1 Query: 52 PSGRW 56 P GRW Sbjct: 3112 PEGRW 3126 Score = 16.5 bits (31), Expect = 1.5, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 7/11 (63%) Frame = +1 Query: 39 KSPPAMRAGGC 49 + PP R+ GC Sbjct: 871 REPPHRRSSGC 903 Score = 15.0 bits (27), Expect = 3.9, Method: Composition-based stats. Identities = 6/7 (85%), Positives = 6/7 (85%) Frame = +3 Query: 27 QPAPSAG 33 QPA SAG Sbjct: 5322 QPAISAG 5342 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAH_ECOLI Q9JMT1 Uncharacterized protein yuaH (110 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 4.8, Method: Compositional matrix adjust. Identities = 7/22 (31%), Positives = 9/22 (40%) Frame = +1 Query: 7 YGGYRALYESGRITEAACMAHA 28 G Y E+G +T HA Sbjct: 6640 IGAYHVETENGMVTFLDTPGHA 6705 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAK_ECOLI Q9JMS9 Uncharacterized protein yuaK (94 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 5.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 5.4, Method: Composition-based stats. Identities = 5/18 (27%), Positives = 11/18 (61%) Frame = -1 Query: 77 CYGIEHIQDWSANLVRDL 94 C G ++++ NLV ++ Sbjct: 4198 CLGSYAVKNYRFNLVFNI 4145 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAL_ECOLI Q9JMS8 Uncharacterized protein yuaL (69 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.36 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.36, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = +3 Query: 11 KSNKYKILLCRYEAMQSMSRR 31 ++N+ L C Y +S SRR Sbjct: 6018 RTNRIDRLPCHYLTTRSGSRR 6080 Score = 14.2 bits (25), Expect = 4.9, Method: Compositional matrix adjust. Identities = 6/15 (40%), Positives = 11/15 (73%) Frame = -2 Query: 2 LHSDQGVQYKSNKYK 16 LH+ Q +++S +YK Sbjct: 3519 LHTYQR*RHRSYRYK 3475 Score = 14.2 bits (25), Expect = 5.1, Method: Compositional matrix adjust. Identities = 6/12 (50%), Positives = 6/12 (50%) Frame = -2 Query: 15 YKILLCRYEAMQ 26 YKI CR Q Sbjct: 180 YKIKTCRIITAQ 145 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAM_ECOLI Q9JMS7 Uncharacterized protein yuaM (231 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 2.1, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = +2 Query: 52 ITLTYGPFNTKS 63 I +TY P N++ Sbjct: 1319 IAVTYSPINSRD 1354 Score = 17.7 bits (34), Expect = 2.5, Method: Compositional matrix adjust. Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 5/31 (16%) Frame = -3 Query: 23 KVNRIAERLSKVQK-----ISFCISVISFFL 48 + +R ER S +S C V++FF Sbjct: 5927 RTSRSTERFSSAASASRRVLSLCC*VVNFFF 5835 Score = 16.9 bits (32), Expect = 4.1, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -2 Query: 134 NCIQVRIPK 142 NC +R+PK Sbjct: 1446 NCTLLRLPK 1420 Score = 16.9 bits (32), Expect = 4.2, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 17/34 (50%) Frame = -3 Query: 57 GPFNTKSNLSFISALSLYFINVIMGVTYLSVPVI 90 P + +S IS + + N VTY+ VP++ Sbjct: 2600 APLPCCNTISAISPIEISKKNT-SSVTYIVVPIL 2502 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAN_ECOLI Q9JMS6 Uncharacterized protein yuaN (77 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAO_ECOLI Q9JMS5 Uncharacterized protein yuaO (Precursor) (1758 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 5.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 5.6, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 9/13 (69%) Frame = -1 Query: 53 SVATCNGQSSTCP 65 S+ TC+ +TCP Sbjct: 4654 SLNTCSPHPNTCP 4616 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAP_ECOLI Q9JMS4 Uncharacterized membrane protein yuaP (89 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 14 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 14.2 bits (25), Expect = 6.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = -1 Query: 18 GLSFAMTTYLNLF 30 SFA Y NLF Sbjct: 4240 SFSFAYFLYNNLF 4202 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAQ_ECOLI Q9JMS3 Uncharacterized protein yuaQ (1371 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 1.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 1.5, Method: Composition-based stats. Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 9/84 (10%) Frame = -3 Query: 287 IFKHNSDNYAFS--SPLISKNTGNGIINAESGETHLTG------DNTDYSGLLNILP-TA 337 +FK +S + + S +I K + +IN + HLT +N+ SG+ A Sbjct: 458 LFKASSTRF*LTRVSDVIGKRKVSAVINPSRLQAHLTAIGLASINNSLCSGIKRSFKRPA 279 Query: 338 SIDISSQKNIGKSVIVNNGVLQIT 361 S+++ S SVI L +T Sbjct: 278 SVNLPSATR*QSSVIPPAATLAVT 207 Score = 20.0 bits (40), Expect = 3.6, Method: Compositional matrix adjust. Identities = 9/14 (64%), Positives = 10/14 (71%) Frame = +2 Query: 77 RSGSAPLIVGAFGN 90 +SGS L VG FGN Sbjct: 1388 KSGSYQLQVGDFGN 1429 Score = 19.6 bits (39), Expect = 4.5, Method: Compositional matrix adjust. Identities = 12/29 (41%), Positives = 12/29 (41%), Gaps = 7/29 (24%) Frame = +3 Query: 690 NGGNLTLTDD-------GVSAGTLTGGGF 711 N NLTLTDD G L GF Sbjct: 381 NSRNLTLTDDIANPC*SEARRGCLEKCGF 467 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAR_ECOLI P34211 Uncharacterized protein yuaR (Precursor) (499 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.5 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 3.5, Method: Compositional matrix adjust. Identities = 10/36 (27%), Positives = 16/36 (44%) Frame = -2 Query: 28 RQIEWQSCMTSPYSDWFGKESSSPELLCGYLSVPLK 63 R + W C+ + FG SP++LC P + Sbjct: 6708 RSMPW--CI*EGHHPVFGFNVISPDMLCDPSCFPCR 6607 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAS_ECOLI Q9JMS2 Uncharacterized protein yuaS (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 1.8, Method: Compositional matrix adjust. Identities = 7/12 (58%), Positives = 9/12 (75%) Frame = -2 Query: 2 GRIAYKSVIMLS 13 GRI+YK +M S Sbjct: 4434 GRISYKIPLMRS 4399 Score = 14.2 bits (25), Expect = 7.6, Method: Compositional matrix adjust. Identities = 6/14 (42%), Positives = 7/14 (50%) Frame = -2 Query: 70 RATTGLIRDPCCKT 83 R + L PCC T Sbjct: 738 RMSNCLPTAPCCDT 697 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAT_ECOLI Q9JMS1 Uncharacterized protein yuaT (153 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.7 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.7, Method: Compositional matrix adjust. Identities = 3/7 (42%), Positives = 5/7 (71%) Frame = +3 Query: 109 AQWICNH 115 +W+C H Sbjct: 4035 VKWLCQH 4055 Score = 15.0 bits (27), Expect = 8.6, Method: Compositional matrix adjust. Identities = 5/11 (45%), Positives = 6/11 (54%) Frame = -3 Query: 131 CFSGMIYPHIQ 141 CF YP +Q Sbjct: 4388 CFHEAAYPPVQ 4356 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAU_ECOLI Q9JMS0 Uncharacterized protein yuaU (213 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.90 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.9 bits (37), Expect = 0.90, Method: Compositional matrix adjust. Identities = 6/16 (37%), Positives = 9/16 (56%) Frame = +2 Query: 67 WDNGPGRYGHVIAAPA 82 WD+ P ++ APA Sbjct: 4697 WDDNPAQFVLNAMAPA 4744 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAV_ECOLI Q9JMR9 Uncharacterized protein yuaV (76 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.14 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 0.14, Method: Compositional matrix adjust. Identities = 8/21 (38%), Positives = 12/21 (57%) Frame = -1 Query: 2 SAFTFSPSRHDGPGTEVYGRP 22 SAF+F+P P +Y +P Sbjct: 2068 SAFSFAPDALH*PSQRLYSKP 2006 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAW_ECOLI Q9JMR8 Uncharacterized protein yuaW (78 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 2.6, Method: Composition-based stats. Identities = 5/6 (83%), Positives = 5/6 (83%) Frame = -3 Query: 73 CTVSLF 78 C VSLF Sbjct: 5570 CNVSLF 5553 Score = 14.6 bits (26), Expect = 4.8, Method: Composition-based stats. Identities = 4/6 (66%), Positives = 5/6 (83%) Frame = -3 Query: 69 IANYCT 74 +AN CT Sbjct: 3530 VANICT 3513 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAX_ECOLI Q9JMR7 Uncharacterized protein yuaX (96 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 7/9 (77%) Frame = -3 Query: 60 ATNPMVSPL 68 NP++SPL Sbjct: 1040 VVNPVISPL 1014 Score = 16.9 bits (32), Expect = 1.3, Method: Composition-based stats. Identities = 8/18 (44%), Positives = 10/18 (55%) Frame = -3 Query: 55 RASGYATNPMVSPLIEHM 72 R SG+ T SPL E + Sbjct: 3293 RNSGFDTTGPYSPLKESL 3240 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAY_ECOLI Q9JMR6 Uncharacterized protein yuaY (299 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.41 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.8 bits (42), Expect = 0.41, Method: Compositional matrix adjust. Identities = 11/32 (34%), Positives = 17/32 (53%) Frame = +2 Query: 25 QQPLKQLARLLNSENLQSVNAHLTRNVELDTF 56 QQ QLA ++ S LQ +T N+E+ + Sbjct: 989 QQQGNQLALVVKSLGLQQQEKMVTSNIEIQHY 1084 Score = 17.7 bits (34), Expect = 2.9, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 8/13 (61%) Frame = +2 Query: 127 PFVRDYQLYVENQ 139 PF YQ+ V+ Q Sbjct: 959 PFAGRYQISVQQQ 997 Score = 17.3 bits (33), Expect = 4.2, Method: Compositional matrix adjust. Identities = 6/9 (66%), Positives = 7/9 (77%) Frame = +1 Query: 266 LYTELDEHG 274 L TEL +HG Sbjct: 6886 LRTELSQHG 6912 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUAZ_ECOLI P08868 Uncharacterized protein yuaZ (90 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 1.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 1.1, Method: Composition-based stats. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +3 Query: 47 RCRRPPHPVTFRR 59 + R PH FRR Sbjct: 3789 KANRAPHF*KFRR 3827 Score = 14.2 bits (25), Expect = 7.7, Method: Composition-based stats. Identities = 6/15 (40%), Positives = 7/15 (46%) Frame = -3 Query: 51 PPHPVTFRRFSSTRC 65 PP TF+ RC Sbjct: 5612 PPELGTFKVLRIFRC 5568 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBA_ECOLI Q9S4X5 Uncharacterized protein yubA (168 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBB_ECOLI Q9S4X4 Uncharacterized protein yubB (145 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBC_ECOLI Q9S4X3 Uncharacterized protein yubC (101 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.69 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 0.69, Method: Composition-based stats. Identities = 7/15 (46%), Positives = 7/15 (46%) Frame = +2 Query: 34 AACGQCPASGWARDG 48 AACG C A G Sbjct: 5216 AACGVCTLEDLAEQG 5260 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBD_ECOLI Q9S4X2 Putative methylase yubD (2.1.1.-) (227 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBE_ECOLI Q9S4X1 Uncharacterized protein yubE (73 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 0.91 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 0.91, Method: Composition-based stats. Identities = 7/20 (35%), Positives = 10/20 (50%) Frame = +2 Query: 33 RCRFDSDVLVERLARQTLYR 52 RC+ + ERL TL + Sbjct: 1604 RCKN*PSCIAERLKLSTLLK 1663 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBF_ECOLI Q9S4X0 Uncharacterized protein yubF (144 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 2.4 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.9 bits (32), Expect = 2.4, Method: Compositional matrix adjust. Identities = 7/24 (29%), Positives = 10/24 (41%) Frame = +1 Query: 121 CVTRRQAVVNQARILLKNNTHENG 144 C T R++ I T +NG Sbjct: 985 CATARKSACFSGEITGFTTTRKNG 1056 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBG_ECOLI Q9S4W9 Uncharacterized protein yubG (258 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 3.0 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.7 bits (34), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/17 (29%), Positives = 9/17 (52%) Frame = -2 Query: 39 GWISIYVLLDAPRLATL 55 W+S ++PR T+ Sbjct: 6231 AWLSFAFTANSPRFFTI 6181 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBH_ECOLI Q9JMR5 Uncharacterized protein yubH (Precursor) (174 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 19 0.56 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.2 bits (38), Expect = 0.56, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 14/28 (50%) Frame = -2 Query: 70 TRPCAWPCGFSVMWPPCRVRAVPCLHLS 97 T PC C S + P C R +PC LS Sbjct: 717 TAPCCDTCAIS*V-PCCNGRIIPCDALS 637 Score = 17.3 bits (33), Expect = 2.4, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 2/29 (6%) Frame = +3 Query: 108 AAAVTRSLLPVCRDFP--VVHPLRFRGLT 134 A RS+ RD P + HP +RG T Sbjct: 1821 TAFRQRSIGKKIRDDPYRMCHP*SYRGFT 1907 Score = 15.8 bits (29), Expect = 6.9, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +3 Query: 67 LRFTRPC 73 LR+TR C Sbjct: 6684 LRYTRAC 6704 Score = 15.4 bits (28), Expect = 7.9, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 7/13 (53%) Frame = +1 Query: 123 PVVHPLRFRGLTL 135 PVV FRG L Sbjct: 3268 PVVSNPEFRGFLL 3306 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBI_ECOLI Q9S4W7 Putative antirestriction protein yubI (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 4.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.8 bits (29), Expect = 4.3, Method: Compositional matrix adjust. Identities = 4/11 (36%), Positives = 6/11 (54%) Frame = +2 Query: 126 HIEFHPECNAI 136 H+E EC + Sbjct: 4955 HLEIDEECATV 4987 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBJ_ECOLI P0C243 Uncharacterized protein yubJ (140 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.9, Method: Composition-based stats. Identities = 8/23 (34%), Positives = 12/23 (52%) Frame = +1 Query: 35 HIAQDWNLSDDELETVMQRLDDA 57 H+AQ LS + + + DDA Sbjct: 2044 HLAQMKKLSYQVNDVLSKLFDDA 2112 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBK_ECOLI Q9JMR4 Uncharacterized serine-rich protein yubK (Precursor) (132 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.2 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 7.2, Method: Compositional matrix adjust. Identities = 5/9 (55%), Positives = 6/9 (66%) Frame = -3 Query: 124 LPAGCHTPV 132 LPA H P+ Sbjct: 4640 LPASQHMPL 4614 Score = 15.0 bits (27), Expect = 8.7, Method: Compositional matrix adjust. Identities = 7/21 (33%), Positives = 10/21 (47%) Frame = +1 Query: 105 RGNAVSQTALHVVAAGPCSLP 125 RG + + VVAA +P Sbjct: 6727 RGAQATDIVVLVVAADDGVMP 6789 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBL1_ECOLI Q9JMR3 UPF0401 protein yubL (79 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 4.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.0 bits (27), Expect = 4.1, Method: Composition-based stats. Identities = 4/8 (50%), Positives = 6/8 (75%) Frame = +1 Query: 12 GLPDGPFT 19 G+P PF+ Sbjct: 2302 GVPLAPFS 2325 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBM_ECOLI Q9S4W2 Uncharacterized protein yubM (652 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 1.8 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 19.6 bits (39), Expect = 1.8, Method: Compositional matrix adjust. Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 6/28 (21%) Frame = +1 Query: 3 VTESKAKTE------RKSSRKPAKTQET 24 ++ESKA E RKS RKP+ Q++ Sbjct: 6163 LSESKADREEARAVGRKSKRKPSTLQQS 6246 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBN_ECOLI Q9JMR2 Uncharacterized protein yubN (105 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 16 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.2 bits (30), Expect = 2.6, Method: Composition-based stats. Identities = 7/18 (38%), Positives = 10/18 (55%) Frame = -3 Query: 7 NGVAPCIPVAFCRDAGSA 24 +G PC + R +GSA Sbjct: 6923 SGRIPC*DSSVLRRSGSA 6870 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBO_ECOLI Q02885 Uncharacterized protein yubO (95 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 3.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 3.6, Method: Compositional matrix adjust. Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 3/34 (8%) Frame = -1 Query: 57 ALSRGVDTQFRHINIAEADHFKQF---LRQIKRA 87 A+ GVDT ++ H K F +R KRA Sbjct: 2416 AI*NGVDTNESLQSVQAQFHLKSFYSLIRCQKRA 2315 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YUBP_ECOLI P18005 UPF0380 protein yubP (273 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 1.9 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 1.9, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +3 Query: 256 RINKALWVIAEQFRKWK 272 RIN L + + RKW+ Sbjct: 3654 RINLTLRIAMQNRRKWQ 3704 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 6/13 (46%), Positives = 7/13 (53%) Frame = +2 Query: 200 TPEQIITPRRWED 212 P I P+RW D Sbjct: 8 APVVIYCPKRW*D 46 Score = 17.3 bits (33), Expect = 3.6, Method: Compositional matrix adjust. Identities = 5/7 (71%), Positives = 6/7 (85%) Frame = +2 Query: 266 EQFRKWK 272 E FR+WK Sbjct: 4007 ETFRRWK 4027 Score = 16.9 bits (32), Expect = 4.3, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 8/11 (72%) Frame = +1 Query: 13 IHRERPLTDDE 23 IHR+ L DD+ Sbjct: 3013 IHRDSLLLDDD 3045 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= YZGL_ECOLI P76692 Putative uncharacterized protein yzgL (93 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZAPA_ECOLI P0ADS2 Cell division protein zapA (Z ring-associated protein zapA) (109 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZAPB_ECOLI P0AF36 Cell division protein zapB (81 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZIPA_ECOLI P77173 Cell division protein zipA (328 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZITB_ECOLI P75757 Zinc transporter zitB (313 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 2.6 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 7/13 (53%), Positives = 10/13 (76%) Frame = +1 Query: 221 DIAELKRRMCREI 233 + AELKR + RE+ Sbjct: 5887 EAAELKRSVEREV 5925 Score = 18.1 bits (35), Expect = 2.6, Method: Compositional matrix adjust. Identities = 13/70 (18%), Positives = 30/70 (42%), Gaps = 1/70 (1%) Frame = +1 Query: 222 IAELKRRMCREIPEVRNVHHVHVWMVGEKPVMTLHVQVIPPHDHDALLD-QIQHYLMDHY 280 +AEL R + + + +++ + + M Q I D +++ + H++M+ Sbjct: 1615 LAELYRGKAKTVYTTEDPNYLVLEFRNDTSAM--DGQRIQAFDRKGMINNKFNHFIMNRL 1788 Query: 281 QIEHATIQME 290 + QME Sbjct: 1789 EAAGIPTQME 1818 Score = 17.7 bits (34), Expect = 3.7, Method: Compositional matrix adjust. Identities = 6/18 (33%), Positives = 8/18 (44%) Frame = +1 Query: 261 PPHDHDALLDQIQHYLMD 278 PPH + HY +D Sbjct: 877 PPHRRSSGCKSNAHYRLD 930 Score = 16.5 bits (31), Expect = 6.4, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = +1 Query: 77 IRHTFGWLRL 86 +RH+FG R+ Sbjct: 4975 VRHSFGRSRI 5004 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZNTB_ECOLI P64423 Zinc transport protein zntB (327 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 5.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 17.3 bits (33), Expect = 5.1, Method: Compositional matrix adjust. Identities = 7/17 (41%), Positives = 10/17 (58%) Frame = +3 Query: 199 RYMAPQRDVYARLASER 215 RY++ Y+ L SER Sbjct: 1695 RYISNGWSTYSSLRSER 1745 Score = 16.5 bits (31), Expect = 7.3, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 7/10 (70%) Frame = +3 Query: 142 DCGGWLVDVC 151 +C G VD+C Sbjct: 3486 NCDGVTVDMC 3515 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZNTR_ECOLI P0ACS5 HTH-type transcriptional regulator zntR (Zn(II)-responsive regulator of zntA) (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 7.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 7.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -1 Query: 124 CSILEA 129 CS+LEA Sbjct: 2827 CSVLEA 2810 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZNUA_ECOLI P39172 High-affinity zinc uptake system protein znuA (Precursor) (310 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 17 6.3 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 16.5 bits (31), Expect = 6.3, Method: Compositional matrix adjust. Identities = 6/22 (27%), Positives = 13/22 (59%) Frame = -2 Query: 171 AKLDANLKDFEAQLASTETQVG 192 +K+ + +DF + AST ++ Sbjct: 3912 SKIFSRGRDFSLETASTTARIS 3847 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZNUB_ECOLI P39832 High-affinity zinc uptake system membrane protein znuB (261 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZNUC_ECOLI P0A9X1 Zinc import ATP-binding protein znuC (3.6.3.-) (251 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 21 0.26 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 21.2 bits (43), Expect = 0.26, Method: Compositional matrix adjust. Identities = 13/35 (37%), Positives = 16/35 (45%) Frame = +2 Query: 85 TVNRFLRLRPGTHKEDILPALKRVQAGHLINAPMQ 119 T R+ R G PALKR+ A I P+Q Sbjct: 569 TEQRYKRQVSGDEAYLNAPALKRLNASQGIILPLQ 673 Score = 17.3 bits (33), Expect = 3.1, Method: Compositional matrix adjust. Identities = 13/50 (26%), Positives = 22/50 (44%) Frame = -2 Query: 154 NGQVALYDLIDQLRRELDCGVLMVSHDLHLVMAKTDEVLCLNHHICCSGT 203 NG + ++D L R + HD ++ + ++ NH ICC T Sbjct: 6837 NGDFRCFSMLDGLDR--------LWHDP--IIGRNNQ----NHDICCLST 6730 Score = 15.8 bits (29), Expect = 9.1, Method: Compositional matrix adjust. Identities = 8/20 (40%), Positives = 11/20 (55%) Frame = -3 Query: 29 PGKILTLLGPNGAGKSTLVR 48 P IL PN + KST ++ Sbjct: 2174 PKVILFSNKPNSSLKSTRIK 2115 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZRAP_ECOLI P0AAA9 Zinc resistance-associated protein (Precursor) (141 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 15 6.1 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 15.4 bits (28), Expect = 6.1, Method: Compositional matrix adjust. Identities = 5/6 (83%), Positives = 6/6 (100%) Frame = -3 Query: 68 TKRYEY 73 TKRY+Y Sbjct: 4697 TKRYQY 4680 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZRAR_ECOLI P14375 Transcriptional regulatory protein zraR (441 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.75 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.75, Method: Compositional matrix adjust. Identities = 10/31 (32%), Positives = 14/31 (45%) Frame = +1 Query: 266 GSNQIISVDVRLIAATHRDLAAEVNAGRFRQ 296 G IISV + A +L V G+F + Sbjct: 187 GGQGIISVTANVAAGGMTELCQRVAEGKFTE 279 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZRAS_ECOLI P14377 Sensor protein zraS (2.7.13.3) (465 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.85 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.85, Method: Compositional matrix adjust. Identities = 8/17 (47%), Positives = 12/17 (70%) Frame = +1 Query: 373 GQHGVISVTASESGAGV 389 G G+ISVTA+ + G+ Sbjct: 187 GGQGIISVTANVAAGGM 237 Score = 18.5 bits (36), Expect = 3.0, Method: Compositional matrix adjust. Identities = 5/10 (50%), Positives = 8/10 (80%) Frame = -2 Query: 164 MPRCNGKAVP 173 +P CNG+ +P Sbjct: 681 VPCCNGRIIP 652 Score = 18.1 bits (35), Expect = 4.3, Method: Compositional matrix adjust. Identities = 7/23 (30%), Positives = 13/23 (56%) Frame = +2 Query: 142 PALEVYRLFQPMSAPWRHGMHNM 164 PAL+ Q + P +HG +++ Sbjct: 623 PALKRLNASQGIILPLQHGTYDI 691 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZUPT_ECOLI P0A8H3 Zinc transporter zupT (257 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 20 0.42 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 20.4 bits (41), Expect = 0.42, Method: Compositional matrix adjust. Identities = 8/29 (27%), Positives = 13/29 (44%) Frame = +2 Query: 216 SVDELMPLAKEIDPNNNPSYGVLCGMSVM 244 S ++ A + PS+GV C + M Sbjct: 3233 SCRGILSAANRVQLYQTPSFGVFCYLKKM 3319 TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= ZUR_ECOLI P0AC51 Zinc uptake regulation protein (Zinc uptake regulator) (171 letters) Database: ri 1 sequences; 7000 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_A... 18 0.86 >AC200764 AC200764.1 Candidatus Regiella insecticola clone CUGI_APP_BA-001O23, WORKING DRAFT SEQUENCE, 3 ordered pieces. Length = 7000 Score = 18.5 bits (36), Expect = 0.86, Method: Compositional matrix adjust. Identities = 5/12 (41%), Positives = 8/12 (66%) Frame = -3 Query: 100 MFICDRCGAVKE 111 FIC RC ++ + Sbjct: 2063 FFICARCASLAQ 2028 Score = 16.2 bits (30), Expect = 4.4, Method: Composition-based stats. Identities = 6/18 (33%), Positives = 7/18 (38%) Frame = -2 Query: 74 GFVHKVESTNSYVLCHLF 91 GF H + HLF Sbjct: 2277 GFYHTA*IATKAIFIHLF 2224 Score = 15.0 bits (27), Expect = 9.4, Method: Compositional matrix adjust. Identities = 6/11 (54%), Positives = 7/11 (63%) Frame = -2 Query: 93 QPTHTSAMFIC 103 + T TSA F C Sbjct: 1509 RSTATSASFCC 1477 Database: ri Posted date: Nov 5, 2009 12:59 PM Number of letters in database: 7000 Number of sequences in database: 1 Lambda K H 0.323 0.139 0.395 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 1 Number of Hits to DB: 9,206,007 Number of extensions: 124794 Number of successful extensions: 9399 Number of sequences better than 10.0: 68 Number of HSP's gapped: 9381 Number of HSP's successfully gapped: 8758 Length of database: 2333 Neighboring words threshold: 13 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 21 (12.6 bits) S2: 21 (12.7 bits)