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= KPN2Jun2003_1 [107 - 403] (99 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 93 5e-21 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 92.8 bits (229), Expect = 5e-21 Identities = 52/99 (52%), Positives = 57/99 (57%) Frame = +2 Query: 1 MANRPISRWWWAATPICSARRGPWPVTTLTSSALTAAPSAFSPTLTRTTPCSSSPTCWKA 60 + N ISR AT IC AR PVT L T A TLT TP +S P CWKA Sbjct: 2749031 LGN*LISR*SLVATVICWARHAHSPVTILKLLESTVATWVS*LTLTPITPSNS*PMCWKA 2749210 Query: 61 TTSPRNAFCWRPRCVSRIARNVSAPPSTKWCCTPAKWRI 99 TTS RN FCW+ + VS+IARN SAP KWC AKWRI Sbjct: 2749211 TTSARNVFCWKRKSVSKIARNASAPR*MKWCFIQAKWRI 2749327 Score = 35.8 bits (81), Expect = 8e-04 Identities = 37/101 (36%), Positives = 42/101 (41%), Gaps = 11/101 (10%) Frame = +1 Query: 6 ISRWWWAATPICSARRGPWPVTTLTSSALTAAPSA---FSPTLTRTTP-CSSSPTCWKAT 61 I RWWW A P CS R W + SSA A P SPT R CS TC Sbjct: 1371481 IPRWWWRAAP-CSGWR--WRCFSTASSA-CAKPRVRW*SSPT*RRPFRWCSPGNTCSTTA 1371648 Query: 62 ----TSPRNAFC---WRPRCVSRIARNVSAPPSTKWCCTPA 95 T+ + FC R RC S I A WCC+P+ Sbjct: 1371649 TALLTTSASIFCISMSRHRCGSII----RAVALCWWCCSPS 1371759 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.321 0.126 0.479 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,165,601 Number of Sequences: 1 Number of extensions: 27777 Number of successful extensions: 549 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 3 Number of HSP's that attempted gapping in prelim test: 116 Number of HSP's gapped (non-prelim): 446 length of query: 99 length of database: 1,546,558 effective HSP length: 72 effective length of query: 27 effective length of database: 1,546,486 effective search space: 41755122 effective search space used: 41755122 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 (22.0 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_2 [1 - 591] (197 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 302 9e-86 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 302 bits (773), Expect(2) = 9e-86 Identities = 153/182 (84%), Positives = 161/182 (88%) Frame = +1 Query: 1 MFWPWVCSKGYKVLFEQQIAHDLQFSNVKPGPLAEIGQQADLPVVVGGDANMFGAARTLA 60 M + W+C+KGY+V+ EQQIAH+LQ NVK G LAEIGQ ADL VVVGGD NM GAARTLA Sbjct: 2748925 MLYRWLCTKGYEVIVEQQIAHELQLKNVKTGTLAEIGQLADLAVVVGGDGNMLGAARTLA 2749104 Query: 61 RYDINVIGINRGTLGFFTDLDPDNALQQLADVLEGHYIAEKRFLLEAQVCQQDCQKRIST 120 RYDI VIGINRG LGF TDLDPDNA QQLADVLEGHYI+EKRFLLEAQVCQQDCQKRIST Sbjct: 2749105 RYDIKVIGINRGNLGFLTDLDPDNAQQQLADVLEGHYISEKRFLLEAQVCQQDCQKRIST 2749284 Query: 121 AINEVVLHPGKVAHMIEFEVYIDEVFAFSQRSDGLIISTPTGSTAYSLSAGGQSLRRRWT 180 AINEVVLHPGKVAHMIEFEVYIDE+FAFSQRSDGLIISTPTGSTAYSLSAGG L T Sbjct: 2749285 AINEVVLHPGKVAHMIEFEVYIDEIFAFSQRSDGLIISTPTGSTAYSLSAGGPIL----T 2749452 Query: 181 PS 182 PS Sbjct: 2749453 PS 2749458 Score = 30.0 bits (66), Expect(2) = 9e-86 Identities = 10/19 (52%), Positives = 10/19 (52%) Frame = +2 Query: 179 WTPSPWCRCSRTPFQRDRW 197 W PWC CSR Q D W Sbjct: 2749460 WMRLPWCPCSRIRCQHDHW 2749516 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.323 0.138 0.438 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,217,915 Number of Sequences: 1 Number of extensions: 18369 Number of successful extensions: 185 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 120 Number of HSP's gapped (non-prelim): 95 length of query: 197 length of database: 1,546,558 effective HSP length: 82 effective length of query: 115 effective length of database: 1,546,476 effective search space: 177844740 effective search space used: 177844740 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 86 (37.7 bits) 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= KPN2Jun2003_3 [453 - 731] (93 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 60 4e-16 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 59.7 bits (143), Expect(2) = 4e-16 Identities = 28/31 (90%), Positives = 29/31 (93%) Frame = +1 Query: 22 PILTPSLDAITLVPMFPHTLSARPLVINGDT 52 PILTPSLDAITLVPMFPHTLSARPLVIN + Sbjct: 2749441 PILTPSLDAITLVPMFPHTLSARPLVINSSS 2749533 Score = 37.0 bits (84), Expect(2) = 4e-16 Identities = 19/36 (52%), Positives = 20/36 (55%) Frame = +2 Query: 54 SACASLTAAAIWRSAATARLPCRSRMAKMSSFAAVI 89 S C A W+S ATAR CR R KMS F AVI Sbjct: 2749538 SVCVFRIAVTTWKSVATAR*HCRFRKVKMS*FVAVI 2749645 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.327 0.133 0.418 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 737,636 Number of Sequences: 1 Number of extensions: 12215 Number of successful extensions: 173 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 96 Number of HSP's gapped (non-prelim): 101 length of query: 93 length of database: 1,546,558 effective HSP length: 68 effective length of query: 25 effective length of database: 1,546,490 effective search space: 38662250 effective search space used: 38662250 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_4 [497 - 802] (102 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 132 7e-33 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 132 bits (332), Expect = 7e-33 Identities = 62/65 (95%), Positives = 64/65 (98%) Frame = +1 Query: 38 TIRLRFSHRCSDLEISCDSQIALPIQDGEDVLIRRCDYHLNLIHPKDYSYFNTLSTKLGW 97 TIRLRFSHR +DLEISCDSQIALPIQ+GEDVLIRRCDYHLNLIHPKDYSYFNTLSTKLGW Sbjct: 2749534 TIRLRFSHRRNDLEISCDSQIALPIQEGEDVLIRRCDYHLNLIHPKDYSYFNTLSTKLGW 2749713 Query: 98 SKKLF 102 SKKLF Sbjct: 2749714 SKKLF 2749728 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.325 0.138 0.452 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 917,396 Number of Sequences: 1 Number of extensions: 17557 Number of successful extensions: 137 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 81 Number of HSP's gapped (non-prelim): 91 length of query: 102 length of database: 1,546,558 effective HSP length: 72 effective length of query: 30 effective length of database: 1,546,486 effective search space: 46394580 effective search space used: 46394580 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 81 (35.8 bits) 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= KPN2Jun2003_5 [1520 - 1840] (107 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 100 5e-23 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 99.8 bits (247), Expect = 5e-23 Identities = 49/105 (46%), Positives = 63/105 (60%) Frame = +3 Query: 2 TKSTSAWPTAASCSAPASTPLRYWRTAKRPICRASFIPRSSWSASWWAWTASFPASWICW 61 TKST+ W TA +C PA W T K C+ SF ++W A+ AWTA+ PA ICW Sbjct: 2750448 TKSTNVWRTAVNC*PPARMHWH*WPTVKTQTCKVSFTRLNNW*AN*LAWTANCPAYLICW 2750627 Query: 62 KRRPFSSARPATSCATTMTVWISIRTVCLNLSNGFPDKSRWRVNI 106 K+ P +PA +CATT VWISI T LNL++ ++ RW VNI Sbjct: 2750628 KKLPSRLLKPAMNCATTAIVWISIPTDYLNLNSASQNRFRWHVNI 2750762 Score = 36.2 bits (82), Expect = 7e-04 Identities = 25/67 (37%), Positives = 33/67 (49%), Gaps = 11/67 (16%) Frame = -1 Query: 9 PTAASCSAPASTP--LRYWRTAKRP--ICRASFIPRSSWSASWWAW-----TASFPASW- 58 PTA S A STP L + +T+ P + S I ++ + WW W +A FPA W Sbjct: 4586332 PTATSIWACCSTPTVLCWKKTSSAPNRVSTLSQINKTIFRRLWWNWITR*ISAKFPA*WK 4586153 Query: 59 -ICWKRR 64 CW RR Sbjct: 4586152 TCCWSRR 4586132 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.322 0.125 0.467 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,289,301 Number of Sequences: 1 Number of extensions: 36064 Number of successful extensions: 575 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 4 Number of HSP's that attempted gapping in prelim test: 19 Number of HSP's gapped (non-prelim): 574 length of query: 107 length of database: 1,546,558 effective HSP length: 73 effective length of query: 34 effective length of database: 1,546,485 effective search space: 52580490 effective search space used: 52580490 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: 40 (21.6 bits) S2: 81 (35.8 bits) 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= KPN2Jun2003_6 [766 - 2547] (594 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 944 0.0 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 944 bits (2441), Expect = 0.0 Identities = 487/581 (83%), Positives = 518/581 (89%), Gaps = 1/581 (0%) Frame = +2 Query: 15 FTAASLLDKKPVYTVRKHSIGFSYRKAAMLAQLTISNFAIVRELEIDFHSGMTAITGETG 74 FT ASLL KPVYTV +S GFSYRK MLAQLTISNFAIVRELEIDFHSGMT ITGETG Sbjct: 2749733 FTPASLLYIKPVYTVHNNSNGFSYRKTTMLAQLTISNFAIVRELEIDFHSGMTVITGETG 2749912 Query: 75 AGKSIAIDALGLCLGGRAEADMVRRGATRADLCARFALKDTPAAQRWLEENQLESGRECL 134 AGKSIAIDALGLCLGGRAEADMVR GA RADLCARF+LKDTPAA RWLEENQLE G ECL Sbjct: 2749913 AGKSIAIDALGLCLGGRAEADMVRTGAARADLCARFSLKDTPAALRWLEENQLEDGHECL 2750092 Query: 135 LRRVISADGRSRGFINGTAVPLSQLRELGQLLIQIHGQHAHQLLTKPEHQKTLLDGYTGE 194 LRRVIS+DGRSRGFINGTAVPLSQLRELGQLLIQIHGQHAHQLLTKPEHQK LLDGY E Sbjct: 2750093 LRRVISSDGRSRGFINGTAVPLSQLRELGQLLIQIHGQHAHQLLTKPEHQKFLLDGYANE 2750272 Query: 195 YALTQRMAEHYRQWHQSCRELAQHQQQSQERAARADLLQYQLKELNEFNPLPGEFEQIDE 254 +L Q M Y+ WHQSCR+LA HQQ SQERAARA+LLQYQLKELNEFNP PGEFEQIDE Sbjct: 2750273 TSLLQEMTARYQLWHQSCRDLAHHQQLSQERAARAELLQYQLKELNEFNPQPGEFEQIDE 2750452 Query: 255 EYKRLANSGQLLSTCQHALTVLADGEEANLQSQLYTAKQLVSELVGMDSKLSGVLDMLEE 314 EYKRLANSGQLL+T Q+AL ++ADGE+ANLQSQLYTAKQLVSEL+GMDSKLSGVLDMLEE Sbjct: 2750453 EYKRLANSGQLLTTSQNALALMADGEDANLQSQLYTAKQLVSELIGMDSKLSGVLDMLEE 2750632 Query: 315 AAIQLSEASDELRHYHDRLDLDPNRLFELEQRISRQIALARKHQVMPEELPAVYQAMLEE 374 A IQ++EASDELRHY DRLDLDPNRLFELEQRIS+QI+LARKH V PE LP YQ++LEE Sbjct: 2750633 ATIQIAEASDELRHYCDRLDLDPNRLFELEQRISKQISLARKHHVSPEALPQYYQSLLEE 2750812 Query: 375 QRLLDDSAGSLESLSQQVVEHHQLALETARQLHALRQASADELTQLITESMHSLSMPHGV 434 Q+ LDD A S E+L+ V +HHQ ALE AR LH RQ A+EL QLIT+SMH+LSMPHG Sbjct: 2750813 QQQLDDQADSQETLALAVTKHHQQALEIARALHQQRQQYAEELAQLITDSMHALSMPHGQ 2750992 Query: 435 FAIEVAFDERHLTAD-ADHIEFRVTTNPGQPLQPIAKVASGGELSRIALAIQVITARKME 493 F I+V FDE HL AD AD IEFRVTTNPGQP+QPIAKVASGGELSRIALAIQVITARKME Sbjct: 2750993 FTIDVKFDEHHLGADGADRIEFRVTTNPGQPMQPIAKVASGGELSRIALAIQVITARKME 2751172 Query: 494 TPALIFDEVDVGISGPTAAVVGKLLRQLGESTQVMCVTHLPQVACCGHHHFFVCKETDGE 553 TPALIFDEVDVGISGPTAAVVGKLLRQLGESTQVMCVTHLPQVA CGH H+FV KETDG Sbjct: 2751173 TPALIFDEVDVGISGPTAAVVGKLLRQLGESTQVMCVTHLPQVAGCGHQHYFVSKETDGA 2751352 Query: 554 MTETHMQPLDKRARLQELARLLGGSEVTRNTLANAKELLAA 594 MTETHMQ L+K+ARLQELARLLGGSEVTRNTLANAKELLAA Sbjct: 2751353 MTETHMQSLNKKARLQELARLLGGSEVTRNTLANAKELLAA 2751475 Score = 48.1 bits (113), Expect = 3e-06 Identities = 76/346 (21%), Positives = 141/346 (40%), Gaps = 30/346 (8%) Frame = -3 Query: 32 HSIGFSYRK--AAMLAQLTISNFAIVR-ELEIDF------HSGMTAITGETGAGKSIAID 82 H + + R+ + + L + N ++ E +IDF +G+ AITG TGAGK+ +D Sbjct: 415013 HDVAYPRRRTRSMKILSLRLKNLNSLKGEWKIDFTREPFASNGLFAITGPTGAGKTTLLD 414834 Query: 83 ALGLCL---------GGRAEADMVRRGATRADLCARFALKDTPAAQRW------------ 121 A+ L L +++ D++ R F +K W Sbjct: 414833 AICLALYHETPRLSNVSQSQNDLMTRDTAECLAEVEFEVKGEAYRAFWSQNRARNQPDGN 414654 Query: 122 LEENQLESGRECLLRRVISADGRSRGFINGTAVPLSQLRELGQLLIQIHGQHAHQLLTKP 181 L+ ++E R C ++++ + + + T L R +L+ GQ A L KP Sbjct: 414653 LQVPRVELAR-CADGKILADKVKDKLELTATLTGLDYGRFTRSMLLS-QGQFAAFLNAKP 414480 Query: 182 EHQKTLLDGYTGEYALTQRMAEHYRQWHQSCRELAQHQQQSQERAARADLLQYQLKELNE 241 + + LL+ TG Q A + Q H+S R ++ Q +A+ LL + + Sbjct: 414479 KERAELLEELTGTEIYGQISAMVFEQ-HKSAR---TELEKLQAQASGVTLLTPE-----Q 414327 Query: 242 FNPLPGEFEQIDEEYKRLANSGQLLSTCQHALTVLADGEEANLQSQLYTAKQLVSELVGM 301 L + + +E K+L + Q + LT + LQ + +Q + + + Sbjct: 414326 VQSLTASLQVLTDEEKQLITAQQQEQQSLNWLT-----RQDELQQEASRRQQALQQALAE 414162 Query: 302 DSKLSGVLDMLEEAAIQLSEASDELRHYHDRLDLDPNRLFELEQRI 347 + K L AA+ L++ + LR + +R+ L + Q+I Sbjct: 414161 EEKAQPQL-----AALSLAQPARNLRPHWERIAEHSAALAHIRQQI 414039 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.319 0.132 0.371 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 2,953,699 Number of Sequences: 1 Number of extensions: 44798 Number of successful extensions: 290 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 1 Number of HSP's that attempted gapping in prelim test: 197 Number of HSP's gapped (non-prelim): 288 length of query: 594 length of database: 1,546,558 effective HSP length: 92 effective length of query: 502 effective length of database: 1,546,466 effective search space: 776325932 effective search space used: 776325932 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: 91 (39.7 bits) 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= KPN2Jun2003_7 [2438 - 2713] (92 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 60 3e-20 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 60.1 bits (144), Expect(2) = 3e-20 Identities = 27/29 (93%), Positives = 29/29 (100%) Frame = +1 Query: 64 KVYYYRHITDEPRTARAQKGIKSLCAVKR 92 KVYY+RHITDEPRTARA+KGIKSLCAVKR Sbjct: 2751556 KVYYHRHITDEPRTARARKGIKSLCAVKR 2751642 Score = 50.4 bits (119), Expect(2) = 3e-20 Identities = 25/54 (46%), Positives = 30/54 (55%) Frame = +3 Query: 1 MCSRWINVLACRSWPVCWAAAKSRATPWRTRKSCLRRKLFDFHRVIVNSKLPAD 54 +C+ I +SW C A KS WR RK+CL+RKLF V VNSK P D Sbjct: 2751366 ICNP*IKKRGYKSWRACLVAVKSHVIHWRMRKNCLQRKLFSCFTVRVNSKTP*D 2751527 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.326 0.133 0.454 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 810,970 Number of Sequences: 1 Number of extensions: 14900 Number of successful extensions: 238 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 147 Number of HSP's gapped (non-prelim): 125 length of query: 92 length of database: 1,546,558 effective HSP length: 67 effective length of query: 25 effective length of database: 1,546,491 effective search space: 38662275 effective search space used: 38662275 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_8 [2692 - 3036] (115 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 213 5e-57 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 213 bits (541), Expect = 5e-57 Identities = 102/113 (90%), Positives = 109/113 (96%) Frame = +3 Query: 1 MTMRCKTLTAAAAVLLMLTAGCSTLERVVYRPDINQGNYLAPNDVAKIRVGMTQQQVAYA 60 +TMRCKTLTAAAAVLLMLTAGCSTLERVVYRPDINQGNYL NDV+KIRVGMTQQQVAYA Sbjct: 2751621 ITMRCKTLTAAAAVLLMLTAGCSTLERVVYRPDINQGNYLTANDVSKIRVGMTQQQVAYA 2751800 Query: 61 LGTPMMTDPFGTNTWFYVFRQEPGHQKVTQQTLTLTFNSGGVLTNIDNKPALT 113 LGTP+M+DPFGTNTWFYVFRQ+PGH+ VTQQTLTLTFNS GVLTNIDNKPAL+ Sbjct: 2751801 LGTPLMSDPFGTNTWFYVFRQQPGHEGVTQQTLTLTFNSSGVLTNIDNKPALS 2751959 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.320 0.131 0.389 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 621,125 Number of Sequences: 1 Number of extensions: 7301 Number of successful extensions: 47 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 38 Number of HSP's gapped (non-prelim): 9 length of query: 115 length of database: 1,546,558 effective HSP length: 74 effective length of query: 41 effective length of database: 1,546,484 effective search space: 63405844 effective search space used: 63405844 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: 82 (36.2 bits) 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= KPN2Jun2003_9 [3065 - 3418] (118 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 42 2e-05 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 42.0 bits (97), Expect = 2e-05 Identities = 19/38 (50%), Positives = 24/38 (63%) Frame = +1 Query: 77 NRLLDRRPLVQRDPLQILLFRQRVGDFNTNISRHCKPL 114 N +RR L+QR LQ+LL R R+ N N + HCKPL Sbjct: 2752219 NSFFNRRALLQRHSLQVLLLR*RISHLNGNFTWHCKPL 2752332 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.329 0.143 0.474 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 998,000 Number of Sequences: 1 Number of extensions: 19548 Number of successful extensions: 192 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 159 Number of HSP's gapped (non-prelim): 97 length of query: 118 length of database: 1,546,558 effective HSP length: 75 effective length of query: 43 effective length of database: 1,546,483 effective search space: 66498769 effective search space used: 66498769 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 82 (36.2 bits) 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= KPN2Jun2003_10 [3406 - 3741] (112 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 149 5e-38 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 149 bits (377), Expect = 5e-38 Identities = 80/111 (72%), Positives = 91/111 (81%) Frame = +3 Query: 2 AREVNACTMLAASSLKIRPKAISISLLVNSKSRWNSILQASGLSGINFQPPISFLNGPST 61 AR V A T+LAASSL RPKA SI+LLVNSKSR NSI AS LSG+NF PPI+FLNGPST Sbjct: 2752335 ARTVKAWTILAASSLNTRPKASSINLLVNSKSR*NSIRHASWLSGVNFHPPINFLNGPST 2752514 Query: 62 RLIKMLWLLVSVLRVVKVLLMPALDTSTAAVICVGPNSSTRLPVQPGRKSG 112 R I++LWLLV+ LRVV VLL+PAL+TSTAAVIC G +S RLPVQPG+ G Sbjct: 2752515 RFIRILWLLVNWLRVVNVLLIPALETSTAAVICPGVDSRIRLPVQPGKN*G 2752667 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.320 0.131 0.378 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 710,006 Number of Sequences: 1 Number of extensions: 10461 Number of successful extensions: 66 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 53 Number of HSP's gapped (non-prelim): 13 length of query: 112 length of database: 1,546,558 effective HSP length: 74 effective length of query: 38 effective length of database: 1,546,484 effective search space: 58766392 effective search space used: 58766392 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: 81 (35.8 bits) 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= KPN2Jun2003_11 [3381 - 3836] (152 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 140 6e-35 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 140 bits (353), Expect = 6e-35 Identities = 74/151 (49%), Positives = 93/151 (61%) Frame = +2 Query: 1 MLAGTVNLFGARSERLHHVSGQLFEDPTKSHLNQFIGKLKIEMEFYFAGLGAQRNKLPAA 60 +L GTVNLF + L H+S QLF+ TK NQ IGKLK+EM+ L AQR KLP+ Sbjct: 2752307 ILPGTVNLFRTNRKSLDHISRQLFKHATKGEFNQLIGKLKVEMKLDTTRLLAQRRKLPST 2752486 Query: 61 NQLLERAIHQAHQNALVAGQCIACGEGLTDAGFGHINRRRHLRRPEFQHAATGAAWQKIR 120 NQ LER IHQ H+N LV GQ +A + D I RR HL R Q+ +G QK+R Sbjct: 2752487 NQFLERPIHQIHKNTLVTGQLVAGSKRFADPSLRDIYRRSHLPRSGLQNPTSGTTRQKLR 2752666 Query: 121 IGLHIVYQLIHLFRAERHQRSTANLRHSRFH 151 I L++++ LIHL RA +Q ANLRH+ FH Sbjct: 2752667 IRLNVIH*LIHLLRAVGYQCGPANLRHNNFH 2752759 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.327 0.138 0.423 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 907,946 Number of Sequences: 1 Number of extensions: 15205 Number of successful extensions: 143 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 121 Number of HSP's gapped (non-prelim): 47 length of query: 152 length of database: 1,546,558 effective HSP length: 79 effective length of query: 73 effective length of database: 1,546,479 effective search space: 112892967 effective search space used: 112892967 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 84 (37.0 bits) 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= KPN2Jun2003_12 [3968 - 4450] (161 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 303 6e-84 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 303 bits (776), Expect = 6e-84 Identities = 144/161 (89%), Positives = 156/161 (96%) Frame = +1 Query: 1 MMTKKKAHKPGSATIALNKRARHEYFIEDEYEAGLALQGWEVKSLRAGKANIGDSYVILK 60 +MTKKKAHKPGSATIALNKRARHEYFIE+E+EAGLALQGWEVKSLRAGKANI DSYV+L+ Sbjct: 2752915 LMTKKKAHKPGSATIALNKRARHEYFIEEEFEAGLALQGWEVKSLRAGKANISDSYVLLR 2753094 Query: 61 DGEAFLFGANFTPMAVASTHYVCDPTRTRKLLLNQRELDTLYGRINREGYTVVALSLYWK 120 DGEAFLFGAN TPMAVASTH VCDPTRTRKLLLNQRELD+LYGR+NREGYTVVALSLYWK Sbjct: 2753095 DGEAFLFGANITPMAVASTHVVCDPTRTRKLLLNQRELDSLYGRVNREGYTVVALSLYWK 2753274 Query: 121 NAWCKVKIGVAKGKKQHDKRTDLKDREWALDKARIMKHAGR 161 NAWCKVKIGVAKGKKQHDKR+D+K+REW +DKARIMK+A R Sbjct: 2753275 NAWCKVKIGVAKGKKQHDKRSDIKEREWQVDKARIMKNAHR 2753397 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.319 0.134 0.407 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 854,033 Number of Sequences: 1 Number of extensions: 11534 Number of successful extensions: 70 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 60 Number of HSP's gapped (non-prelim): 30 length of query: 161 length of database: 1,546,558 effective HSP length: 79 effective length of query: 82 effective length of database: 1,546,479 effective search space: 126811278 effective search space used: 126811278 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: 84 (37.0 bits) 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= KPN2Jun2003_13 [5344 - 5652] (103 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.321 0.129 0.443 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,119,040 Number of Sequences: 1 Number of extensions: 24116 Number of successful extensions: 312 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 3 Number of HSP's that attempted gapping in prelim test: 202 Number of HSP's gapped (non-prelim): 312 length of query: 103 length of database: 1,546,558 effective HSP length: 72 effective length of query: 31 effective length of database: 1,546,486 effective search space: 47941066 effective search space used: 47941066 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 (22.0 bits) S2: 81 (35.8 bits) 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= KPN2Jun2003_14 [5840 - 6127] (96 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.317 0.130 0.404 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 713,221 Number of Sequences: 1 Number of extensions: 12984 Number of successful extensions: 113 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 98 Number of HSP's gapped (non-prelim): 59 length of query: 96 length of database: 1,546,558 effective HSP length: 71 effective length of query: 25 effective length of database: 1,546,487 effective search space: 38662175 effective search space used: 38662175 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_15 [5974 - 6282] (103 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.324 0.130 0.470 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,044,654 Number of Sequences: 1 Number of extensions: 23675 Number of successful extensions: 267 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 1 Number of HSP's that attempted gapping in prelim test: 227 Number of HSP's gapped (non-prelim): 127 length of query: 103 length of database: 1,546,558 effective HSP length: 72 effective length of query: 31 effective length of database: 1,546,486 effective search space: 47941066 effective search space used: 47941066 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 81 (35.8 bits) 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= KPN2Jun2003_16 [5034 - 6371] (446 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 378 e-106 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 378 bits (970), Expect = e-106 Identities = 194/398 (48%), Positives = 266/398 (66%), Gaps = 1/398 (0%) Frame = +1 Query: 32 MPKVLKSLTNTEIAAAKPQKTEYMLRDGDGLALLIKPSGRKIWYFEYAPPALKKRTKISI 91 M + K LT+TEI AAKP+ +Y L DGDGL LLIK SG K+W F Y P K+RTK S Sbjct: 2754181 MARKTKPLTDTEIKAAKPKDADYQLYDGDGLTLLIKSSGSKLWQFRYYRPLTKQRTKQSF 2754360 Query: 92 GPYPVVTLAMARDFRLQYRRLLVQGIDPQAHLEQVAEEQRLQNECTLEKVAEQWLKEKKR 151 G YP V+L+ AR R + + LL + IDPQ H ++ + T VAE+W KK Sbjct: 2754361 GAYPAVSLSDARKLRAESKVLLAKDIDPQEHQKEQVRNSQEAKTNTFLLVAERWWNVKK- 2754537 Query: 152 TSDLSEDHAKDVWRSLEMHVFPSLGNTPVTEIRPKMLKEHLTLLEEQGILETLRRVISRL 211 + ++ED+A D+WRSLE +FP++G+ +TEI+ L + + ++ +G LET+RR+ R+ Sbjct: 2754538 -TSVTEDYADDIWRSLERDIFPAIGDISITEIKAHTLVKAVQPVQARGALETVRRLCQRI 2754714 Query: 212 NEIFRFAISEELIEFNPADNLVARFKKPKKQNMPALHPSELGRLMLALQNASIRKETRCL 271 NE+ +A + LI+ P+ N+ F+KP+K+NMP++ P +L +LM ++ ASI TRCL Sbjct: 2754715 NEVMIYAQNTGLIDAVPSVNIGKAFEKPQKKNMPSIRPDQLPQLMHTMRTASISMSTRCL 2754894 Query: 272 IEWELLTWVRPGEAVSARWCDIDMKKAEWRIPDTFMKMNRSHTVPLSKQALRVLQIMEPV 331 W+LLT RP EA ARW +ID +EW+IP MKMNR HTVPLS AL +L++M+P+ Sbjct: 2754895 FMWQLLTITRPAEAAEARWDEIDFNASEWKIPAARMKMNRDHTVPLSDGALAILEMMKPL 2755074 Query: 332 SRHRPWVFPSIRKPLEHMHQQTANAALIRMGFGGELVAHGMRSIARTA-GAGHFPREVLE 390 S R ++FPS KP + M+ QT NAAL R G GG LV+HG+RSIA TA FP +V+E Sbjct: 2755075 SGGREFIFPSRIKPNQPMNSQTVNAALKRAGLGGVLVSHGLRSIASTALNEEGFPPDVIE 2755254 Query: 391 SALAHQKEDEIEAAYNRSDYLEQRRPLMQWWGNYVDAA 428 +ALAH ++E+ AYNRSDYLEQRRP+MQWW + V AA Sbjct: 2755255 AALAHVDKNEVRRAYNRSDYLEQRRPMMQWWADLVKAA 2755368 Score = 206 bits (523), Expect = 6e-54 Identities = 131/411 (31%), Positives = 216/411 (52%), Gaps = 17/411 (4%) Frame = +2 Query: 38 SLTNTEIAAAKPQKTEYMLRDGDGLALLIKPSGRKIWYFEYAPPALKKRTKISIGPYPVV 97 +LT+ ++ AAKP +Y L DG G+ LL+ P+G K W +Y K+ +++G YP + Sbjct: 4494701 ALTDIKVRAAKPTDKQY*LTDGGGMHLLVHPNGSKYWRLQYRYEG--KQKMLALGVYPEI 4494874 Query: 98 TLAMARDFRLQYRRLLVQGIDPQAHLEQVAEEQRLQNECTLEKVAEQWLKEKKRTSDLSE 157 TLA AR R + R+LL G+DP + EQ T ++VA +W K+ S E Sbjct: 4494875 TLADARVRRDEARKLLANGVDPGDKKKNDKVEQSKAR--TFKEVAIEWHGTNKKWS---E 4495039 Query: 158 DHAKDVWRSLEMHVFPSLGNTPVTEIRPKMLKEHLTLLEEQGILETLRRVISRLNEIFRF 217 DHA V +SLE ++F +LG + E++ + L + +E G LE R+ R I R+ Sbjct: 4495040 DHAHRVLKSLEDNLFAALGERNIAELKTRDLLAPIKAVEMSGRLEVAARLQQRTTAIMRY 4495219 Query: 218 AISEELIEFNPADNLVARFKKPKKQNMPALHPSELGRLMLALQNASIRKETRCLIEWELL 277 A+ LI++NPA + +Q+ PAL + L+ + + + R TR IE LL Sbjct: 4495220 AVQSGLIDYNPAQEMAGAVASCNRQHRPALELKRIPELLTKIDSYTGRPLTRWAIELTLL 4495399 Query: 278 TWVRPGEAVSARWCDIDMKKAEWRIP------------DTFMKMNRSHTVPLSKQALRVL 325 ++R E ARW +ID + + W IP KM +H VPLS QAL +L Sbjct: 4495400 IFIRSSELRFARWSEIDFEASIWTIPPEREPIPGVKHSHRGSKMRTTHLVPLSTQALAIL 4495579 Query: 326 QIMEPVSRHRPWVFPSIRKPLEHMHQQTANAALIRMGFGG--ELVAHGMRSIARTA--GA 381 + ++ +F + M + T N+AL MG+ E+ HG R++A ++ + Sbjct: 4495580 KQIKQFYGAHDLIFIGDHDSHKPMSENTVNSALRVMGYDTKVEVCGHGFRTMACSSLVES 4495759 Query: 382 GHFPREVLESALAHQKEDEIEAAY-NRSDYLEQRRPLMQWWGNYVDAARRQ 431 G + R+ +E ++H + + AAY +++++LE+RR ++QWW +++D R + Sbjct: 4495760 GLWSRDAVERQMSHMARNSVRAAYIHKAEHLEERRLMLQWWADFLDVNRER 4495912 Score = 166 bits (420), Expect = 5e-42 Identities = 115/398 (28%), Positives = 193/398 (48%), Gaps = 7/398 (1%) Frame = +1 Query: 36 LKSLTNTEIAAAKPQKTEYMLRDGDGLALLIKPSGRKIWYFEYAPPALKKRTKISIGPYP 95 L LT +I AAKP++ Y L DG+GL L + SG+K+W Y +K +++G YP Sbjct: 2464561 LPMLTVKQIEAAKPKEKPYRLLDGNGLYLYVPVSGKKVWQLRYKIDGKEKI--LTVGKYP 2464734 Query: 96 VVTLAMARDFRLQYRRLLVQGIDPQAHLEQVAEEQRLQNECTLEKVAEQWLKEKKRTSDL 155 ++TL ARD R+ + GIDP V ++ N + + ++W + KK+ Sbjct: 2464735 LMTLQEARDKAWTARKDISVGIDP------VKAKKASSNNNSFSAIYKEWYEHKKQV--W 2464890 Query: 156 SEDHAKDVWRSLEMHVFPSLGNTPVTEIRPKMLKEHLTLLEEQGILETLRRVISRLNEIF 215 S +A ++ + + + P +G + +I P L E + E++G +E + R E+F Sbjct: 2464891 SVGYATELAKMFDDDILPIIGGLEIQDIEPMQLLEVIRRFEDRGAMERANKARRRCGEVF 2465070 Query: 216 RFAISEELIEFNPADNLVARFKKPKKQNMPALHPSELGRLMLALQNASIRKETRCLIEWE 275 R+AI ++NPA +L K +K+N P L ++ AL A+ LI + Sbjct: 2465071 RYAIVTGRAKYNPAPDLADAMKGYRKKNFPFLPADQIPAFNKAL--ATFSGSIVSLIATK 2465244 Query: 276 LL--TWVRPGEAVSARWCDIDMKKAEWRIPDTFMKMNRSHTVPLSKQALRVL----QIME 329 +L T +R E S W ++D + I + MK + H VP+S Q + +L I + Sbjct: 2465245 VLRYTALRTKELRSMLWKNVDFENRIITIDASVMKGRKIHVVPMSDQVVELLTTLSSITK 2465424 Query: 330 PVSRHRPWVFPSIRKPLEHMHQQTANAALIRMGFGGELVAHGMRSIARTAGAGH-FPREV 388 PVS +VF + + + + ++G+ G HG R T H +P + Sbjct: 2465425 PVSE---FVFAGRNDKKKPICENAVLLVIKQIGYEGLESGHGFRHEFSTIMNEHEWPADA 2465595 Query: 389 LESALAHQKEDEIEAAYNRSDYLEQRRPLMQWWGNYVD 426 +E LAH + YN + YL++RR +MQWW +++D Sbjct: 2465596 IEVQLAHANGGSVRGIYNHAQYLDKRREMMQWWADWLD 2465709 Score = 165 bits (418), Expect = 9e-42 Identities = 138/412 (33%), Positives = 202/412 (49%), Gaps = 10/412 (2%) Frame = +1 Query: 39 LTNTEIAAAKPQKTEYMLRDG--DGLALLIKPSGRKIWYFEYAPPALKKRTKI-SIGPYP 95 LT I AA+PQ Y L D GL LL+ P+G K W F Y L KR + +IG YP Sbjct: 2556895 LTAKAIDAAQPQDKPYKLTDSLTPGLFLLVHPNGSKYWRFRYW---LNKREFLQAIGVYP 2557065 Query: 96 VVTLAMARDFRLQYRRLLVQGIDPQAHLEQVAEEQRLQNECTLEKVAEQWLKEKKRTSDL 155 ++TL AR + R L+ GI+P + L +KVAE W R Sbjct: 2557066 LITLKEARRRATESRSLIANGINPVEQARKEKAIDALNMAAGFKKVAEDWFAT--RVGGW 2557239 Query: 156 SEDHAKDVWRSLEMHVFPSLGNTPVTEIRPKMLKEHLTLLE--EQGILETLRRVISRLNE 213 SE +AK V +LE V+P LG + +I + + L LL+ E+ E R++ R+ E Sbjct: 2557240 SESYAKQVRSALEKDVYPVLGKRSIVDITAR---DVLALLQKKERTAPEQARKLRRRIGE 2557410 Query: 214 IFRFAISEELIEFNPADNLVARFKKPKKQNMPALHPSELGRLMLALQNA-SIRKETRCLI 272 IF+FA+ EL+ NP +L K + + + SE+ AL+ A S++ +T I Sbjct: 2557411 IFKFAVITELVTRNPVADLDTALKARRPGHNAWIPISEIPAFYKALERAGSVQIQTA--I 2557584 Query: 273 EWELLTWVRPGEAVSARWCDIDMKKAEWRIPDTFMKMNRSHTVPLSKQALRVLQIMEPVS 332 +LT +R E RW I+++ A +P MK R H VPLS+QA+ +LQ S Sbjct: 2557585 RLLILTALRTAELRLCRWEWINLEDATITLPAEVMKARRPHVVPLSRQAVELLQDQFTRS 2557764 Query: 333 RHRPWVFPS--IRKPLEHMHQQTANAALIRMGFGGELVAHGMRSIARTA--GAGHFPREV 388 + +VFP + KPL AL R+G+ HG R+ TA +G + + Sbjct: 2557765 GYSAFVFPGRFMDKPLS---ASAILKALERIGYKSIATGHGWRTTFSTALNESGRYSPDW 2557935 Query: 389 LESALAHQKEDEIEAAYNRSDYLEQRRPLMQWWGNYVDAARRQALLGEEEPL 440 +E LAH + I YN++ YL+QRR +MQ + + +D+ L G PL Sbjct: 2557936 IEIQLAHVPKG-IRGVYNQAAYLKQRRAMMQDYADAIDS----ILAGNGNPL 2558076 Score = 42.7 bits (99), Expect = 8e-05 Identities = 52/225 (23%), Positives = 102/225 (45%), Gaps = 16/225 (7%) Frame = +1 Query: 122 HLEQVAEEQRLQNECTLEKVAEQWLKEKK-RTSDLSEDHAKDVWRSL-----EMHVFPSL 175 +LE+ E ++ + T++++AE++L K+ + S + + V +++ E ++ S+ Sbjct: 1649653 NLEKFGEARQ---DLTIKELAEKFLALKETEVAKTSLNTYRAVIKNILSIIGEKNLASSI 1649823 Query: 176 GNTPVTEIRPKML------KEHLTLLEEQGILETLRRVISRLNEIFRFAISEELIEFNPA 229 + E+R ++L K + + + T+ ++ LN +F+F + + NP Sbjct: 1649824 NKEKLLEVRKELLTGYQIPKSNYIVTQPGRSAVTVNNYMTNLNAVFQFGVDNGYLADNPF 1650003 Query: 230 DNLVARFKKPKKQNMPALHP---SELGRLMLALQNASIRKETRCLIEWELLTWVRPGEAV 286 + P K++ P E RL+ A +N K C+ + T VRPGE Sbjct: 1650004 KGI-----SPLKESRTIPDPLSREEFIRLIDACRNQQA-KNLWCV---SVYTGVRPGELC 1650156 Query: 287 SARWCDIDMKKAEWRIPDTFMKMNRSHTVPLSKQAL-RVLQIMEP 330 + W DID+K I K TVP ++ RV+ +++P Sbjct: 1650157 ALGWEDIDLKNGTMMIRRNLAK--DRFTVPKTQAGTNRVIHLIKP 1650285 Score = 42.0 bits (97), Expect = 1e-04 Identities = 39/153 (25%), Positives = 63/153 (41%), Gaps = 7/153 (4%) Frame = -1 Query: 276 LLTWVRPGEAVSARWCDIDMKKAEWRIPDTFMKMNRSHTVPLSKQALRVLQIM--EPVS- 332 LLT R E S RW D+D K + RI D K+ +PL+ +L ++ P S Sbjct: 295420 LLTGARREEIASLRWSDVDFKWSSMRIKD---KIEGERIIPLTPYVSELLNVLAQSPNSD 295250 Query: 333 -RHRPWVFPSIRKPLEHMHQQTANAALIRMGFGGELVAHGM-RSIARTAGAGHFPREVLE 390 WVF S K + + ++A+ + + + HG+ RS A P ++ Sbjct: 295249 VNKEGWVFRSNSKSGKIIEPRSAHNRALVLAELPHISLHGLRRSFGTLAEWVEVPTGIVA 295070 Query: 391 SALAHQKEDEIEAAYNRS--DYLEQRRPLMQWW 421 + H+ E Y R D L + ++ W Sbjct: 295069 QIMGHKPSALAEKHYRRRPLDLLRKWHEKIETW 294971 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.321 0.134 0.409 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 2,732,709 Number of Sequences: 1 Number of extensions: 43814 Number of successful extensions: 226 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 1 Number of HSP's that attempted gapping in prelim test: 102 Number of HSP's gapped (non-prelim): 141 length of query: 446 length of database: 1,546,558 effective HSP length: 90 effective length of query: 356 effective length of database: 1,546,468 effective search space: 550542608 effective search space used: 550542608 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 (21.9 bits) S2: 90 (39.3 bits) 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= KPN2Jun2003_17 [6398 - 6646] (83 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.326 0.135 0.485 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 887,396 Number of Sequences: 1 Number of extensions: 18117 Number of successful extensions: 267 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 179 Number of HSP's gapped (non-prelim): 166 length of query: 83 length of database: 1,546,558 effective HSP length: 58 effective length of query: 25 effective length of database: 1,546,500 effective search space: 38662500 effective search space used: 38662500 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_18 [6307 - 7017] (237 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.318 0.133 0.395 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,470,634 Number of Sequences: 1 Number of extensions: 23084 Number of successful extensions: 117 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 117 Number of HSP's gapped (non-prelim): 0 length of query: 237 length of database: 1,546,558 effective HSP length: 84 effective length of query: 153 effective length of database: 1,546,474 effective search space: 236610522 effective search space used: 236610522 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 87 (38.1 bits) 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= KPN2Jun2003_19 [7177 - 9999] (941 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.319 0.138 0.403 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 4,367,066 Number of Sequences: 1 Number of extensions: 59548 Number of successful extensions: 277 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 277 Number of HSP's gapped (non-prelim): 0 length of query: 941 length of database: 1,546,558 effective HSP length: 96 effective length of query: 845 effective length of database: 1,546,462 effective search space: 1306760390 effective search space used: 1306760390 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 (21.7 bits) S2: 93 (40.4 bits) 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= KPN2Jun2003_20 [7063 - 6764] (REVERSE SENSE) (100 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.318 0.126 0.378 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 663,154 Number of Sequences: 1 Number of extensions: 11512 Number of successful extensions: 112 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 112 Number of HSP's gapped (non-prelim): 0 length of query: 100 length of database: 1,546,558 effective HSP length: 72 effective length of query: 28 effective length of database: 1,546,486 effective search space: 43301608 effective search space used: 43301608 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_21 [6516 - 6109] (REVERSE SENSE) (136 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done ***** No hits found ****** Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.328 0.141 0.456 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,107,954 Number of Sequences: 1 Number of extensions: 23941 Number of successful extensions: 203 Number of sequences better than 1.0e-03: 0 Number of HSP's better than 0.0 without gapping: 0 Number of HSP's successfully gapped in prelim test: 1 Number of HSP's that attempted gapping in prelim test: 184 Number of HSP's gapped (non-prelim): 137 length of query: 136 length of database: 1,546,558 effective HSP length: 77 effective length of query: 59 effective length of database: 1,546,481 effective search space: 91242379 effective search space used: 91242379 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 83 (36.6 bits) 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= KPN2Jun2003_22 [6389 - 5862] (REVERSE SENSE) (176 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 61 8e-11 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 60.8 bits (146), Expect = 8e-11 Identities = 38/147 (25%), Positives = 67/147 (45%), Gaps = 1/147 (0%) Frame = -2 Query: 30 VSPPLHQRSPLFQIVAAVVGRFDLVFFLVCQRRFQNFTGE-MTCSRRSGNTAHTVGNQLT 88 +SPPLH R+ L +I+ AV+ L+F + +R F + + R+G+ V N+ T Sbjct: 2755353 ISPPLHHRTTLLKIITAVISATHLIFVYMSKRCFNDIRWKSFLIECRTGDRTQAV*NKYT 2755174 Query: 89 AEPHTNKRGVRGLLVHMLQWFADAGEHPRTMAADGLHDLKNAQRLFAERHSVRTVHLHKG 148 + T + + L +H L A + + + LH +N++ + + VHLH Sbjct: 2755173 S*ASTLECCIHCLAIHWLVGLDTARKDKFSATTERLHHFQNSKSPIR*WNRMVPVHLHSS 2754994 Query: 149 VGDAPFRFFHVDVAPAGADGFAGANPG 175 + PF +D+ P+ F A G Sbjct: 2754993 CRNFPFASIEIDLIPSSLSSFGRAGDG 2754913 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.327 0.140 0.445 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,159,932 Number of Sequences: 1 Number of extensions: 20551 Number of successful extensions: 141 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 111 Number of HSP's gapped (non-prelim): 121 length of query: 176 length of database: 1,546,558 effective HSP length: 81 effective length of query: 95 effective length of database: 1,546,477 effective search space: 146915315 effective search space used: 146915315 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 85 (37.4 bits) 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= KPN2Jun2003_23 [5764 - 5510] (REVERSE SENSE) (85 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 35 0.001 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 35.4 bits (80), Expect = 0.001 Identities = 30/85 (35%), Positives = 39/85 (45%) Frame = -3 Query: 1 MFCFFGFLKRATRLSAGLNSMSSSEMAKRKISLSREITRRSVSSMPCSSSSVRCSLSIFG 60 MF F GF K + G S+ A SL R RR+VS+ P + + + Sbjct: 2754812 MFFFCGFSKAFPIFTLGTASIRPVFCA*IMTSLIR*QRRRTVSNAPLA*TG*TALTRV*A 2754633 Query: 61 RISVTGVLPKEGKTCISSERQTSLA 85 ISV + P GK +SSERQ S A Sbjct: 2754632 LISVILISPIAGKISLSSERQISSA 2754558 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.320 0.127 0.348 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 491,019 Number of Sequences: 1 Number of extensions: 7067 Number of successful extensions: 67 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 54 Number of HSP's gapped (non-prelim): 67 length of query: 85 length of database: 1,546,558 effective HSP length: 60 effective length of query: 25 effective length of database: 1,546,498 effective search space: 38662450 effective search space used: 38662450 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 (21.9 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_24 [4474 - 4004] (REVERSE SENSE) (157 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 174 5e-45 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 174 bits (440), Expect = 5e-45 Identities = 81/149 (54%), Positives = 109/149 (73%) Frame = -2 Query: 8 LTSGVLHNTRLIQRPFTIFQVGTLVVLFLTFGDADFHFAPGVLPVQRQGDDGVTFAVNAA 67 LT GV H+T I PF +F + T +VLFLTFGDADFHFAPG+ PVQ + G+ F+++A Sbjct: 2753400 LTVGVFHDTCFIHLPFALFDI*TFIVLFLTFGDADFHFAPGIFPVQGERHYGIAFSIDAT 2753221 Query: 68 VQRVEFALVEQQLTGARRVADIVGGSHGHGRKVGAEQEGFAILQDDIAIADVGFACTQGF 127 VQ V+FALVE+ L G R+A + G HGH R V A+Q+ ++ Q D+A+AD+GF+C QGF Sbjct: 2753220 VQ*VQFALVEK*LAGTGRIAHHMRGGHGHWRDVSAKQKCLSVTQKDVAVADIGFSCAQGF 2753041 Query: 128 DFPALQGETSLVFIFDKVFVTGAFIQRNG 156 +FPALQG++ FDKVFVTGA ++R+G Sbjct: 2753040 NFPALQGKSRFELFFDKVFVTGALVKRDG 2752954 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.326 0.144 0.423 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 720,782 Number of Sequences: 1 Number of extensions: 9922 Number of successful extensions: 61 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 51 Number of HSP's gapped (non-prelim): 51 length of query: 157 length of database: 1,546,558 effective HSP length: 79 effective length of query: 78 effective length of database: 1,546,479 effective search space: 120625362 effective search space used: 120625362 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 84 (37.0 bits) 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= KPN2Jun2003_25 [3860 - 3387] (REVERSE SENSE) (158 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 266 6e-73 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 266 bits (681), Expect = 6e-73 Identities = 135/157 (85%), Positives = 143/157 (91%) Frame = -1 Query: 1 MILFALCLNVEPAMPQISRTALVPFSAEQMYQLVNDVKSYPDFLPGCTGSRVLEFGPTQM 60 MILF L +E MPQISRTALVP+SAEQMYQLVNDV+SYP FLPGCTGSR+LE P QM Sbjct: 2752786 MILFVGFLLMEIVMPQISRTALVPYSAEQMYQLVNDVQSYPQFLPGCTGSRILESTPGQM 2752607 Query: 61 TAAVDVSKAGISKTFTTRNTLTSNQSILMSLVDGPFKKLIGGWKFIPLSPEACKIEFHLD 120 TAAVDVSKAGISKTFTTRN LTSNQSILM+LVDGPFKKLIGGWKF PLS EAC+IEFHLD Sbjct: 2752606 TAAVDVSKAGISKTFTTRNQLTSNQSILMNLVDGPFKKLIGGWKFTPLSQEACRIEFHLD 2752427 Query: 121 FEFTNKLIEMAFGRIFKELAANMVQAFTSRAKEVYSA 157 FEFTNKLIE+AFGR+FKELAANMVQAFT RAKEVYSA Sbjct: 2752426 FEFTNKLIELAFGRVFKELAANMVQAFTVRAKEVYSA 2752316 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.322 0.135 0.396 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 714,486 Number of Sequences: 1 Number of extensions: 8371 Number of successful extensions: 43 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 33 Number of HSP's gapped (non-prelim): 33 length of query: 158 length of database: 1,546,558 effective HSP length: 79 effective length of query: 79 effective length of database: 1,546,479 effective search space: 122171841 effective search space used: 122171841 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 (22.0 bits) S2: 84 (37.0 bits) 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= KPN2Jun2003_26 [3478 - 3218] (REVERSE SENSE) (87 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 79 6e-17 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 79.3 bits (194), Expect = 6e-17 Identities = 42/61 (68%), Positives = 44/61 (72%) Frame = -2 Query: 5 LVGSSKSWPLTWCRRSLRAPKRFTVPANIRVEVAYALPEKQYLQRVTLDEGATVEQAIIA 64 LV KSW L W R KRFTVP I VEVAYALPEKQYLQRVTL EGATVE+AI A Sbjct: 2752392 LVACLKSWRLIWSRLLRFVRKRFTVPGKIAVEVAYALPEKQYLQRVTLQEGATVEEAIRA 2752213 Query: 65 A 65 + Sbjct: 2752212 S 2752210 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.326 0.132 0.449 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 773,291 Number of Sequences: 1 Number of extensions: 10596 Number of successful extensions: 205 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 171 Number of HSP's gapped (non-prelim): 171 length of query: 87 length of database: 1,546,558 effective HSP length: 62 effective length of query: 25 effective length of database: 1,546,496 effective search space: 38662400 effective search space used: 38662400 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_27 [2964 - 2641] (REVERSE SENSE) (108 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 133 4e-33 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 133 bits (335), Expect = 4e-33 Identities = 72/108 (66%), Positives = 80/108 (74%) Frame = -3 Query: 1 MLSHFLVARLLTEDIEPGIGAERIRHHWRPQSISYLLLRHTDTNFCYIVWCQIVTLVDVR 60 +LS+ + LL EDIEPGI + I H Q + LLLRH +T F Y+V QIV LVDVR Sbjct: 2751893 LLSYTFMTWLLAEDIEPGIRTKWIGHQRCTQCVRNLLLRHANTYFGYVVSGQIVPLVDVR 2751714 Query: 61 TVNHSFQSGTACGQHKKNRCGSSQRFTAHSDLIPFWARAVRGSSVICR 108 TVNHS QSGTACGQH+ C SSQRFTAHSDLIPF ARAVRGSSVICR Sbjct: 2751713 TVNHSLQSGTACGQHQ*YCCCSSQRFTAHSDLIPFRARAVRGSSVICR 2751570 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.328 0.137 0.458 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 885,565 Number of Sequences: 1 Number of extensions: 14855 Number of successful extensions: 110 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 90 Number of HSP's gapped (non-prelim): 110 length of query: 108 length of database: 1,546,558 effective HSP length: 73 effective length of query: 35 effective length of database: 1,546,485 effective search space: 54126975 effective search space used: 54126975 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 81 (35.8 bits) 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= KPN2Jun2003_28 [2472 - 2047] (REVERSE SENSE) (142 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 110 4e-26 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 110 bits (276), Expect = 4e-26 Identities = 60/136 (44%), Positives = 87/136 (63%), Gaps = 1/136 (0%) Frame = -1 Query: 6 FIQRLHMGFGHLAIGLFADKEMMVAAACDLRQVGHAHHLRGLAQLAQQLADHGGGRAADA 65 FIQ LHM F H IG FADK +++ + DL QVG+ HHL A+L QQ AD+ A+ Sbjct: 2751385 FIQGLHMRFCHRTIGFFADKIVLMTTSRDLWQVGNTHHLS*FAELTQQFADNCRCWTANP 2751206 Query: 66 DVHFVEDERRGFHFTRGDHLNRQRNARQFAAGGHFGDWLQRLTGVSGDAELNMVG-VGGE 124 +HF++++ RGFHFTR D L+ Q +A QF G FG+ L LT V G +LN +G V + Sbjct: 2751205 YIHFIKNQCRGFHFTRRDDLDCQCDAGQFTTGCDFGNRLHWLTWVGGYPKLNTIGTVSAQ 2751026 Query: 125 MAFIERDLNREDPVRH 140 + ++ +++R+ P+RH Sbjct: 2751025 VMLVKFNIDRKLPMRH 2750978 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.326 0.140 0.430 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 761,600 Number of Sequences: 1 Number of extensions: 11935 Number of successful extensions: 99 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 87 Number of HSP's gapped (non-prelim): 67 length of query: 142 length of database: 1,546,558 effective HSP length: 78 effective length of query: 64 effective length of database: 1,546,480 effective search space: 98974720 effective search space used: 98974720 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 83 (36.6 bits) 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= KPN2Jun2003_29 [2043 - 1168] (REVERSE SENSE) (292 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 228 8e-61 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 228 bits (580), Expect = 8e-61 Identities = 137/292 (46%), Positives = 180/292 (61%) Frame = -1 Query: 1 MHTFGDKLGQLVGAGLAQGMQLACGLQRQLMMFDHLLAEGFQRAGAVVQQALLFQHRLIN 60 MHT GD+L + LA + A Q LMMF + + F G +VQ L FQ RL+ Sbjct: 2750968 MHTVGDQLCKFFCILLALLV*CARDFQCLLMMFRYRQRKRFL*VGLIVQLLLFFQ*RLVI 2750789 Query: 61 RRQLFRHHLMFTRQRDLSGNPLLKFKQTVRIEIQTVMVVAQLVAGLAELNGRLFQHIQDA 120 Q R +MFT QR+L + L KFK +V IEIQT+ VVAQ +AG + L+G FQHI+ A Sbjct: 2750788 LWQCLRADVMFTCQRNLF*DALFKFK*SVGIEIQTIAVVAQFIAGFSNLDGSFFQHIKYA 2750609 Query: 121 GKLAVHAHQLADQLLRGIKLALQIGLFAVRQYRKGVLAGAEQLAAVGQALVLFVNLLEFS 180 G+ AVHA+Q A QL +KL LQ+ +F V + +LAG +QL AV Q VLFV+L + S Sbjct: 2750608 GQFAVHANQFAHQLFSRVKLTLQVCVFTVGH*CQCILAGGQQLTAVRQTFVLFVDLFKLS 2750429 Query: 181 RQRVKFVQLFKLILQQIGAGGALLALLLMLGQLAAALVPLAIVLGHTLSKRILTGIAVEQ 240 R+KFV+ F L+LQQ GGA L LLM+ ++ AAL+P I GH L R GIA++Q Sbjct: 2750428 GLRIKFVKFF*LVLQQFRTGGAFLT*LLMMREVTAALMPQLITCGHFLQ*RGFIGIAIKQ 2750249 Query: 241 RFLVFGFGQQLVGMLAVDLDQQLAQLAQLRERDGGAVDEAARAAVGADHPAK 292 FLV FG+ L+ +L +DL+QQL Q AQL +R+ VDE A + ADH K Sbjct: 2750248 EFLVLRFGE*LMSVLTMDLNQQLTQFAQL*QRNSCTVDETTGATIAADHATK 2750093 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.329 0.142 0.396 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,231,097 Number of Sequences: 1 Number of extensions: 16396 Number of successful extensions: 122 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 106 Number of HSP's gapped (non-prelim): 76 length of query: 292 length of database: 1,546,558 effective HSP length: 86 effective length of query: 206 effective length of database: 1,546,472 effective search space: 318573232 effective search space used: 318573232 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 88 (38.5 bits) 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= KPN2Jun2003_30 [1143 - 877] (REVERSE SENSE) (89 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 84 2e-18 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 84.3 bits (207), Expect = 2e-18 Identities = 42/89 (47%), Positives = 54/89 (60%) Frame = -1 Query: 1 MILFQPALGGRGIFQREARAQVGTGGAATHHVGFRSAAEAQPQRVDGNGFPGAGFPGDGG 60 ++ FQPA IFQR+ AQV A THHVGF + E + + + N F AG G Sbjct: 2750068 LVFFQPAQSRWRIFQRKTGAQVSASSAGTHHVGFSATTETKTEGIYCNRFTRAGLASYYG 2749889 Query: 61 HAAVEINFQFTNDSKITDGELRQHSCLPV 89 HAA++IN + TNDSK+ DG+L QHS PV Sbjct: 2749888 HAAMKINLKLTNDSKVADGQLCQHSRFPV 2749802 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.320 0.139 0.427 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 525,656 Number of Sequences: 1 Number of extensions: 8063 Number of successful extensions: 36 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 27 Number of HSP's gapped (non-prelim): 23 length of query: 89 length of database: 1,546,558 effective HSP length: 64 effective length of query: 25 effective length of database: 1,546,494 effective search space: 38662350 effective search space used: 38662350 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: 80 (35.4 bits) 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= KPN2Jun2003_31 [763 - 470] (REVERSE SENSE) (98 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 62 7e-20 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 62.4 bits (150), Expect(2) = 7e-20 Identities = 29/51 (56%), Positives = 39/51 (76%) Frame = -2 Query: 1 MEIAVIFRVNQIEVIITAANEDIFAILDRQGNLAVAADLQIAAAVREAQAD 51 +EI VIFR+NQI+++ITA N+DIF L+RQ LAVA D Q+ A+R+ Q D Sbjct: 2749689 VEITVIFRMNQIQMVITATNQDIFTFLNRQCYLAVATDFQVVTAMRKTQTD 2749537 Score = 47.0 bits (110), Expect(2) = 7e-20 Identities = 23/34 (67%), Positives = 28/34 (82%) Frame = -3 Query: 57 ITSGRAERVCGNIGTRVMASSDGVRIGRRPTANR 90 +TSGRA+ VCGN+GTRV+AS +GVRIG P A R Sbjct: 2749520 MTSGRADNVCGNMGTRVIASREGVRIG--PPAER 2749425 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.322 0.133 0.380 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 518,998 Number of Sequences: 1 Number of extensions: 6570 Number of successful extensions: 49 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 28 Number of HSP's gapped (non-prelim): 49 length of query: 98 length of database: 1,546,558 effective HSP length: 71 effective length of query: 27 effective length of database: 1,546,487 effective search space: 41755149 effective search space used: 41755149 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 (21.9 bits) S2: 80 (35.4 bits) 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= KPN2Jun2003_32 [519 - 1] (REVERSE SENSE) (173 letters) Database: eco 1 sequences; 4,639,675 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. 182 1e-47 >U00096 U00096.2 Escherichia coli K12 MG1655, complete genome. Length = 4639675 Score = 182 bits (463), Expect = 1e-47 Identities = 94/171 (54%), Positives = 121/171 (70%) Frame = -2 Query: 3 AGRQRIGGGAGRSGDNQAIGSLRERKDFVDIDFELNHMRHFAGVQHHFVDGGADTFLAIL 62 A R+ IGGGA +N +I SLR+RKD VDI FELNHMRHFA ++HHF+ GAD FLAIL Sbjct: 2749437 ACREGIGGGACWRRNN*SIRSLRKRKDLVDIHFELNHMRHFAWMKHHFIYRGADAFLAIL 2749258 Query: 63 LTHLGLQQKAFLGDVVAFQHVGELLQGVVRVKVGEKAEGAAVNADDVNVVTGQGPRRAEH 122 LT L QQK FL DVVAFQH+G LL GV+ VKV ++ + A V++++ N+VTG+ RA+H Sbjct: 2749257 LTDLRFQQKTFLADVVAFQHIG*LLLGVIGVKVSQETQVATVDSNNFNIVTGECACRAQH 2749078 Query: 123 IGVAAHHHREIGLLANLRQRAGFHVAELKIMGDLLFKQHFIPFAAHPGPEH 173 I VA + +REI L NLR+RA FH+ +L+ + DLL + F A P EH Sbjct: 2749077 ITVATNDYREIS*LPNLRERASFHILQLQFVSDLLLNDDLVTFCAQPAVEH 2748925 Database: eco Posted date: Oct 3, 2006 5:40 PM Number of letters in database: 4,639,675 Number of sequences in database: 1 Lambda K H 0.324 0.142 0.423 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 927,505 Number of Sequences: 1 Number of extensions: 14084 Number of successful extensions: 160 Number of sequences better than 1.0e-03: 1 Number of HSP's better than 0.0 without gapping: 1 Number of HSP's successfully gapped in prelim test: 3 Number of HSP's that attempted gapping in prelim test: 49 Number of HSP's gapped (non-prelim): 160 length of query: 173 length of database: 1,546,558 effective HSP length: 80 effective length of query: 93 effective length of database: 1,546,478 effective search space: 143822454 effective search space used: 143822454 frameshift window, decay const: 40, 0.1 T: 13 A: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 85 (37.4 bits)