TBLASTN 2.2.21 [Jun-14-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= sp|P0AAI3|FTSH_ECOLI Cell division protease ftsH OS=Escherichia coli (strain K12) GN=hflB PE=1 SV=1 (644 letters) Database: pm 204 sequences; 2,269,587 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value AE006080 Pasteurella multocida subsp. multocida str. Pm70 sectio... 915 0.0 AE006212 Pasteurella multocida subsp. multocida str. Pm70 sectio... 48 2e-06 AE006234 Pasteurella multocida subsp. multocida str. Pm70 sectio... 45 1e-05 >AE006080 Pasteurella multocida subsp. multocida str. Pm70 section 47 of 204 of the complete genome. Length = 13546 Score = 915 bits (2366), Expect = 0.0, Method: Compositional matrix adjust. Identities = 448/628 (71%), Positives = 520/628 (82%), Gaps = 2/628 (0%) Frame = +2 Query: 1 MAKNLILWLVIAVVLMSVFQSFGPSESNGRKVDYSTFLQEVNNDQVREARINGREINVTK 60 M KNL+LW+V+AVV+M+ +Q F S S+G DY+TF+ ++ NDQ+R+AR + EI VTK Sbjct: 839 MVKNLVLWIVVAVVMMTAYQGFN-SSSSGNTTDYTTFITDLGNDQIRQARFDYNEIFVTK 1015 Query: 61 KDSNRYTTYIPVQDPKLLDNLLTKNVKVVGEPPEEPSLLASIFISWFPMLLLIGVWIXXX 120 D ++YTT +P+ D KLL++LL K VKV G PE+ L + I ISWFPMLLLIGVW Sbjct: 1016 TDGSKYTTVMPLNDDKLLNDLLNKKVKVEGTLPEKRGLFSQILISWFPMLLLIGVWFFFM 1195 Query: 121 XXXXXXXXXXXXXXXXXXXRMLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKL 180 RM+T++QIKTTFADVAGCDEAKEEV E+V++LR+P +FQKL Sbjct: 1196 RQMQGGGSKAMSFGKSRA-RMMTQEQIKTTFADVAGCDEAKEEVGEIVDFLRDPGKFQKL 1372 Query: 181 GGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQA 240 GGKIPKG+LMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQA Sbjct: 1373 GGKIPKGILMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQA 1552 Query: 241 KKAAPCIIFIDEIDAVXXXXXXXXXXXHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRP 300 KK APC+IFIDEIDAV HDEREQTLNQMLVEMDGFEGNEG+IVIAATNRP Sbjct: 1553 KKNAPCLIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGVIVIAATNRP 1732 Query: 301 DVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPXXXXXXXXRGTPGFSGAD 360 DVLDPAL RPGRFDRQVVVGLPDVRGREQILKVHMRRVP+AP RGTPG+SGAD Sbjct: 1733 DVLDPALTRPGRFDRQVVVGLPDVRGREQILKVHMRRVPIAPDVDAMTLARGTPGYSGAD 1912 Query: 361 LANLVNEAALFAARGNKRVVSMVEFEKAKDKIMMGAERRSMVMTEAQKESTAYHEAGHAI 420 LANLVNEAALFAAR NKR+V+M+EFEKAKDKI MG ERR+M+MTE QKESTAYHEAGHAI Sbjct: 1913 LANLVNEAALFAARTNKRLVTMLEFEKAKDKINMGPERRTMIMTEKQKESTAYHEAGHAI 2092 Query: 421 IGRLVPEHDPVHKVTIIPRGRALGVTFFLPEGDAISASRQKLESQISTLYGGRLAEEIIY 480 +G LVPEHDPVHKVTIIPRGRALGVTFFLPEGD +S S+++LES++STLY GRLAE++IY Sbjct: 2093 VGYLVPEHDPVHKVTIIPRGRALGVTFFLPEGDQVSISQKQLESKLSTLYAGRLAEDLIY 2272 Query: 481 GPEHVSTGASNDIKVATNLARNMVTQWGFSEKLGPLLYAEEEGEVFLGRSVAKAKHMSDE 540 G E++STGASNDIKVATN+ARNMVTQWGFSEKLGP+LY+E++GEVFLGRS+AKAKHMSDE Sbjct: 2273 GEENISTGASNDIKVATNIARNMVTQWGFSEKLGPILYSEDDGEVFLGRSMAKAKHMSDE 2452 Query: 541 TARIIDQEVKALIERNYNRARQLLTDNMDILHAMKDALMKYETIDAPQIDDLMARRDVRP 600 TA +ID+EV+ ++ RNY RARQ+L DNMDILHAMKDAL+KYETI+ QI+ LM R+ V P Sbjct: 2453 TAHLIDEEVRTIVTRNYERARQILIDNMDILHAMKDALVKYETIEEEQIEQLMKRQPVTP 2632 Query: 601 PAGWE--EPGASNNSGDNGSPKAPRPVD 626 P+GW+ EP NN+G SP+ V+ Sbjct: 2633 PSGWDENEPTTQNNAGTKASPEPKSAVE 2716 >AE006212 Pasteurella multocida subsp. multocida str. Pm70 section 179 of 204 of the complete genome. Length = 13738 Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 28/74 (37%), Positives = 42/74 (56%), Gaps = 2/74 (2%) Frame = -3 Query: 171 LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM-FVGVG 229 L+EP R + PK +LM+GP G GKT +A+ +A A PF + + F E+ +VG Sbjct: 4307 LQEPLRHEV----TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE 4140 Query: 230 A-SRVRDMFEQAKK 242 S +RD+ + A K Sbjct: 4139 VDSIIRDLTDSAMK 4098 >AE006234 Pasteurella multocida subsp. multocida str. Pm70 section 201 of 204 of the complete genome. Length = 14505 Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 42/127 (33%), Positives = 62/127 (48%), Gaps = 10/127 (7%) Frame = +1 Query: 140 RMLTEDQIKTTFAD-VAGCDEAKE--EVAELVEYLREPSRFQKLGGKIPKG-VLMVGPPG 195 ++ T +I+ D V G D AK+ VA Y R S Q ++ K +L++GP G Sbjct: 2371 KLPTPHEIRAHLDDYVIGQDYAKKVLSVAVYNHYKRLRSDKQITDVELGKSNILLIGPTG 2550 Query: 196 TGKTLLAKAIAGEAKVPFFTISGSDFVEM-FVGVGASRVRDMFEQA-----KKAAPCIIF 249 +GKTLLA+ +A VPF + E +VG V Q+ ++A II+ Sbjct: 2551 SGKTLLAETMARMLNVPFAMADATTLTEAGYVGEDVENVLQKLVQSCDYDVERAEQGIIY 2730 Query: 250 IDEIDAV 256 IDEID + Sbjct: 2731 IDEIDKI 2751 Database: pm Posted date: Oct 31, 2009 11:53 AM Number of letters in database: 2,269,587 Number of sequences in database: 204 Lambda K H 0.317 0.135 0.388 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 204 Number of Hits to DB: 1,107,704 Number of extensions: 12315 Number of successful extensions: 72 Number of sequences better than 1.0e-03: 3 Number of HSP's gapped: 70 Number of HSP's successfully gapped: 3 Length of query: 644 Length of database: 756,529 Length adjustment: 88 Effective length of query: 556 Effective length of database: 738,577 Effective search space: 410648812 Effective search space used: 410648812 Neighboring words threshold: 13 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 48 (23.1 bits)