TBLASTN 2.2.10 [Oct-19-2004] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Query= dcd_ecoli descripsion (193 letters) Database: pa 529 sequences; 6,296,083 total letters Searching..done Score E Sequences producing significant alignments: (bits) Value embl|AE004769|AE004769 Pseudomonas aeruginosa PAO1, section 330 ... 56 3e-09 embl|AE004749|AE004749 Pseudomonas aeruginosa PAO1, section 310 ... 28 0.66 embl|AE004473|AE004473 Pseudomonas aeruginosa PAO1, section 34 o... 28 0.66 embl|AE004459|AE004459 Pseudomonas aeruginosa PAO1, section 20 o... 28 0.86 embl|AE004446|AE004446 Pseudomonas aeruginosa PAO1, section 7 of... 27 1.5 embl|AE004742|AE004742 Pseudomonas aeruginosa PAO1, section 303 ... 27 2.5 embl|AE004875|AE004875 Pseudomonas aeruginosa PAO1, section 436 ... 26 3.3 embl|AE004672|AE004672 Pseudomonas aeruginosa PAO1, section 233 ... 26 3.3 embl|AE004802|AE004802 Pseudomonas aeruginosa PAO1, section 363 ... 26 4.3 embl|AE004753|AE004753 Pseudomonas aeruginosa PAO1, section 314 ... 26 4.3 embl|AE004678|AE004678 Pseudomonas aeruginosa PAO1, section 239 ... 26 4.3 embl|AE004665|AE004665 Pseudomonas aeruginosa PAO1, section 226 ... 26 4.3 embl|AE004649|AE004649 Pseudomonas aeruginosa PAO1, section 210 ... 26 4.3 embl|AE004470|AE004470 Pseudomonas aeruginosa PAO1, section 31 o... 26 4.3 embl|AE004912|AE004912 Pseudomonas aeruginosa PAO1, section 473 ... 25 5.6 embl|AE004673|AE004673 Pseudomonas aeruginosa PAO1, section 234 ... 25 5.6 embl|AE004443|AE004443 Pseudomonas aeruginosa PAO1, section 4 of... 25 7.3 embl|AE004724|AE004724 Pseudomonas aeruginosa PAO1, section 285 ... 25 9.5 embl|AE004674|AE004674 Pseudomonas aeruginosa PAO1, section 235 ... 25 9.5 embl|AE004550|AE004550 Pseudomonas aeruginosa PAO1, section 111 ... 25 9.5 >embl|AE004769|AE004769 Pseudomonas aeruginosa PAO1, section 330 of 529 of the complete genome. Length = 13017 Score = 56.2 bits (134), Expect = 3e-09 Identities = 43/151 (28%), Positives = 71/151 (47%) Frame = -2 Query: 34 DVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHPGELALAVT 93 DVR +F+ F +A +D PK+ + + SD ++ P ALA T Sbjct: 674 DVRCAAEFKVFTNIHSAVVD---PKNFDEKSFVDINSDVCIIP--------PNSFALART 528 Query: 94 LESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGM 153 +E +P D++ G+S+ AR G++V+VT ++P W G + LEF N+ LP + Sbjct: 527 VEYFRIPRDVLTICLGKSTYARCGIIVNVTP--LEPEWEGHVTLEFSNTTNLPAKIYANE 354 Query: 154 LIGALSFEPLSGPAVRPYNRREDAKYRNQQG 184 + + F S A + KY+ Q+G Sbjct: 353 GVAQMLFLQ-SDEACEVSYKDRGGKYQGQRG 264 Score = 27.3 bits (59), Expect = 1.5 Identities = 24/63 (38%), Positives = 30/63 (47%), Gaps = 4/63 (6%) Frame = -2 Query: 63 AALDRVMSDEIVLDEGEAFYLHPGEL----ALAVTLESVTLPADLVGWLDGRSSLARLGL 118 A L + +E+VLD E L PG LAV L+S ADL G + R+ A L L Sbjct: 11387 AFLAELALEELVLDIDEL--LRPGNRQEHGVLAVALDSFGGDADLQGQVHSRAEAAGLLL 11214 Query: 119 MVH 121 H Sbjct: 11213 FEH 11205 >embl|AE004749|AE004749 Pseudomonas aeruginosa PAO1, section 310 of 529 of the complete genome. Length = 16841 Score = 28.5 bits (62), Expect = 0.66 Identities = 25/72 (34%), Positives = 32/72 (44%), Gaps = 10/72 (13%) Frame = -3 Query: 131 WSGCIVLEFYN--SGKLP-----LALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQ 183 W GC V + +G+LP L R G +PL+GPAV R A R QQ Sbjct: 12558 WPGCGVPGYGGRAAGRLPGRGGRLGKRTAGSAGGRLRQPLAGPAVPFRTHRLGAPGRTQQ 12379 Query: 184 G---AVASRIDK 192 G + A R D+ Sbjct: 12378 GRRRSAAQRADR 12343 >embl|AE004473|AE004473 Pseudomonas aeruginosa PAO1, section 34 of 529 of the complete genome. Length = 9953 Score = 28.5 bits (62), Expect = 0.66 Identities = 17/46 (36%), Positives = 26/46 (56%) Frame = -3 Query: 143 GKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVAS 188 G P ALRPG+L+ A+ + P P + R ++R+QQG A+ Sbjct: 1848 GTDPAALRPGLLLAAVHPDAGDLPGHLPGSHRR--RHRHQQGVEAT 1717 >embl|AE004459|AE004459 Pseudomonas aeruginosa PAO1, section 20 of 529 of the complete genome. Length = 9932 Score = 28.1 bits (61), Expect = 0.86 Identities = 15/36 (41%), Positives = 19/36 (52%) Frame = +3 Query: 3 LCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLG 38 L D ++A +DE LS P R NGA D+ LG Sbjct: 1809 LADLAVDALIDEAELSPKPALVDRRGNGAHADLHLG 1916 >embl|AE004446|AE004446 Pseudomonas aeruginosa PAO1, section 7 of 529 of the complete genome. Length = 19762 Score = 27.3 bits (59), Expect = 1.5 Identities = 20/69 (28%), Positives = 30/69 (43%) Frame = -1 Query: 60 EVSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLM 119 E++ LD V + D G L G+ + E V +DLV R ++ R G + Sbjct: 5017 ELAGQLDGVPGHPV--DPGGGGMLDAGQQVVQAMAELVEQGSDLVVGQQRRLAVHRRGEV 4844 Query: 120 VHVTAHRID 128 H HR+D Sbjct: 4843 AH*VGHRVD 4817 >embl|AE004742|AE004742 Pseudomonas aeruginosa PAO1, section 303 of 529 of the complete genome. Length = 12902 Score = 26.6 bits (57), Expect = 2.5 Identities = 8/15 (53%), Positives = 13/15 (86%) Frame = -3 Query: 6 RDIEAWLDEGRLSIN 20 RD+E W+ EGR+++N Sbjct: 2721 RDVEVWIAEGRVNVN 2677 Score = 25.4 bits (54), Expect = 5.6 Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 11/58 (18%) Frame = -1 Query: 144 KLPLALRPGMLIGALSFEP------LSGPAVRPYNR-----REDAKYRNQQGAVASRI 190 +LP+ LRP L+ EP +G RP R D R Q GA+ SRI Sbjct: 7781 RLPVQLRPAALLAGRRAEPGGGARHGAGVGSRPARRFADSGNLDTARRGQAGALPSRI 7608 >embl|AE004875|AE004875 Pseudomonas aeruginosa PAO1, section 436 of 529 of the complete genome. Length = 10429 Score = 26.2 bits (56), Expect = 3.3 Identities = 25/89 (28%), Positives = 35/89 (39%), Gaps = 10/89 (11%) Frame = -2 Query: 106 WLDGRSSLARLGLMVHVTA----------HRIDPGWSGCIVLEFYNSGKLPLALRPGMLI 155 W GRS++ RL L T R+ P +GC L + G+LP R G I Sbjct: 4065 WGRGRSAVTRLLLRCRPTR*PGHAEGVRRGRLRPRCAGCQGLYRADPGRLPRPWRSGGTI 3886 Query: 156 GALSFEPLSGPAVRPYNRREDAKYRNQQG 184 PL R + R D ++ +G Sbjct: 3885 AGGRCRPLRPGCARQH--RPDGRHLQGRG 3805 >embl|AE004672|AE004672 Pseudomonas aeruginosa PAO1, section 233 of 529 of the complete genome. Length = 10855 Score = 26.2 bits (56), Expect = 3.3 Identities = 13/25 (52%), Positives = 15/25 (60%) Frame = +1 Query: 105 GWLDGRSSLARLGLMVHVTAHRIDP 129 G L G +LARL + V A RIDP Sbjct: 8743 GLLGGEGALARLRAAIVVQARRIDP 8817 >embl|AE004802|AE004802 Pseudomonas aeruginosa PAO1, section 363 of 529 of the complete genome. Length = 10623 Score = 25.8 bits (55), Expect = 4.3 Identities = 12/29 (41%), Positives = 16/29 (55%) Frame = -3 Query: 27 RINGATVDVRLGNKFRTFRGHTAAFIDLS 55 R+ G VD RLG F GH AF +++ Sbjct: 4324 RLGGGVVDQRLGLLAGLFLGHVLAFHEIA 4238 >embl|AE004753|AE004753 Pseudomonas aeruginosa PAO1, section 314 of 529 of the complete genome. Length = 16268 Score = 25.8 bits (55), Expect = 4.3 Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 11/84 (13%) Frame = +2 Query: 98 TLPADLVGWLDGRSSLARLGLMVHVTAHRI--------DPGWSGCIVLEF---YNSGKLP 146 TL A L+G L + R G+ A + + W +VL N+G L Sbjct: 15632 TLLAALLGLLFALPAAGRFGVPAQSLARLLLNALRAVPELVWGALMVLAAGLGQNAGTLA 15811 Query: 147 LALRPGMLIGALSFEPLSGPAVRP 170 LAL G ++G L E L +P Sbjct: 15812 LALHTGGVLGRLFAEALENTPAQP 15883 >embl|AE004678|AE004678 Pseudomonas aeruginosa PAO1, section 239 of 529 of the complete genome. Length = 11593 Score = 25.8 bits (55), Expect = 4.3 Identities = 19/72 (26%), Positives = 30/72 (41%) Frame = +3 Query: 71 DEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHRIDPG 130 D D GE P +L LA ++ + + G LDG + + + AHR+ Sbjct: 4245 DHPAADVGEQAQPAPAQLLLAAEWQAQAVGVERRGILDGDGDVGTVADVAEGGAHRLQ-- 4418 Query: 131 WSGCIVLEFYNS 142 +VLE + S Sbjct: 4419 -HVAVVLELHQS 4451 >embl|AE004665|AE004665 Pseudomonas aeruginosa PAO1, section 226 of 529 of the complete genome. Length = 14439 Score = 25.8 bits (55), Expect = 4.3 Identities = 14/38 (36%), Positives = 18/38 (47%) Frame = -2 Query: 143 GKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYR 180 G P RPG LIGA P+ P P + R ++R Sbjct: 128 GPRPARARPGQLIGATPLRPVL-PVSPPGDARHAGRFR 18 >embl|AE004649|AE004649 Pseudomonas aeruginosa PAO1, section 210 of 529 of the complete genome. Length = 23425 Score = 25.8 bits (55), Expect = 4.3 Identities = 15/55 (27%), Positives = 24/55 (43%) Frame = -2 Query: 130 GWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYRNQQG 184 GW+GC G+ + +RPG L G L P ++ E+ + R +G Sbjct: 8682 GWAGCACGSMTQVGRSSVPVRPGGLGGRL-----------PSSKAEEVRARGVRG 8551 >embl|AE004470|AE004470 Pseudomonas aeruginosa PAO1, section 31 of 529 of the complete genome. Length = 12495 Score = 25.8 bits (55), Expect = 4.3 Identities = 11/22 (50%), Positives = 13/22 (59%) Frame = +3 Query: 148 ALRPGMLIGALSFEPLSGPAVR 169 A RPG + G L+ EPL P R Sbjct: 2292 AFRPGEVAGGLTGEPLRNPVAR 2357 >embl|AE004912|AE004912 Pseudomonas aeruginosa PAO1, section 473 of 529 of the complete genome. Length = 12498 Score = 25.4 bits (54), Expect = 5.6 Identities = 13/34 (38%), Positives = 17/34 (50%) Frame = -1 Query: 100 PADLVGWLDGRSSLARLGLMVHVTAHRIDPGWSG 133 P D G +DGR A+L + HR GW+G Sbjct: 3837 PVDPEGGMDGRQQAAQL----EGSVHRQGQGWTG 3748 >embl|AE004673|AE004673 Pseudomonas aeruginosa PAO1, section 234 of 529 of the complete genome. Length = 24397 Score = 25.4 bits (54), Expect = 5.6 Identities = 12/26 (46%), Positives = 15/26 (57%) Frame = +2 Query: 164 SGPAVRPYNRREDAKYRNQQGAVASR 189 SGPA+R RR R + GAV+ R Sbjct: 14765 SGPAIRRAGRRRRCPARRRPGAVSRR 14842 >embl|AE004443|AE004443 Pseudomonas aeruginosa PAO1, section 4 of 529 of the complete genome. Length = 19372 Score = 25.0 bits (53), Expect = 7.3 Identities = 12/26 (46%), Positives = 15/26 (57%) Frame = -3 Query: 164 SGPAVRPYNRREDAKYRNQQGAVASR 189 SGPA+R RR R + GAV+ R Sbjct: 11135 SGPAIRRAGRRRRCPARRRLGAVSRR 11058 >embl|AE004724|AE004724 Pseudomonas aeruginosa PAO1, section 285 of 529 of the complete genome. Length = 16903 Score = 24.6 bits (52), Expect = 9.5 Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 3/86 (3%) Frame = +2 Query: 27 RINGATVDVRLGNKFRTFRGHTAAFI-DLSGPKDEVSAALDRVMSDEIVLDEGEAFYLHP 85 RI G + + ++ RT G + + GP+ A L +V++D + GE Sbjct: 16256 RIGGQRLGIDGSDENRTGAGLGIGHLAERPGPQRGPQARLQQVVADLLGAQRGEFVSGIT 16435 Query: 86 GELAL--AVTLESVTLPADLVGWLDG 109 GEL L AV ++ L L+ +DG Sbjct: 16436 GELQLLVAVEIDDHRLQDALLATMDG 16513 >embl|AE004674|AE004674 Pseudomonas aeruginosa PAO1, section 235 of 529 of the complete genome. Length = 11021 Score = 24.6 bits (52), Expect = 9.5 Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 3/70 (4%) Frame = +1 Query: 64 ALDRVMSDEIVLDEGEAFYLHPGE-LALAVTLESVTLPADL--VGWLDGRSSLARLGLMV 120 A DRV + +VLD G H GE + L + +P L + LD AR G + Sbjct: 3487 AADRVEVEHVVLDLGAGLARHGGEQRRMPARLGILHVPHQLSRIA*LDALHQAAR-GKAL 3663 Query: 121 HVTAHRIDPG 130 AH ++ G Sbjct: 3664 ATLAHGVEAG 3693 >embl|AE004550|AE004550 Pseudomonas aeruginosa PAO1, section 111 of 529 of the complete genome. Length = 10840 Score = 24.6 bits (52), Expect = 9.5 Identities = 41/165 (24%), Positives = 64/165 (38%), Gaps = 3/165 (1%) Frame = -2 Query: 12 LDEGRLS--INPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDEVSAALDRVM 69 LDEG + + R V G T + R G FR GH A G + + R + Sbjct: 8802 LDEGVVG*FVAQRLQVAGAVGETHEQRAG--FRLLDGHVEAAAGHLGARLDTVVGTVRRL 8629 Query: 70 SDEIVLDEGEAFYLHPGELALAVTLESVTLPA-DLVGWLDGRSSLARLGLMVHVTAHRID 128 + VLD P + + + TL A D + WL R++ + V ++D Sbjct: 8628 QHDFVLDHQTRQVQAPVQAVAVIDEDLETLQADDEILWL-ARTADQAFPELQPVEDRQVD 8452 Query: 129 PGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNR 173 C V++ +L +A L GA L+G R ++R Sbjct: 8451 K----CPVVDLDQVFELHVA---HFLFGACDRRVLTGDGCRKFSR 8338 Database: pa Posted date: Oct 1, 2006 10:26 PM Number of letters in database: 6,296,083 Number of sequences in database: 529 Lambda K H 0.320 0.139 0.422 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 2,149,094 Number of Sequences: 529 Number of extensions: 41511 Number of successful extensions: 206 Number of sequences better than 10.0: 20 Number of HSP's better than 10.0 without gapping: 90 Number of HSP's successfully gapped in prelim test: 19 Number of HSP's that attempted gapping in prelim test: 113 Number of HSP's gapped (non-prelim): 123 length of query: 193 length of database: 2,098,694 effective HSP length: 84 effective length of query: 109 effective length of database: 2,054,258 effective search space: 223914122 effective search space used: 223914122 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 52 (24.6 bits)