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= ASSY_ECOLI (447 letters) Database: vc 344 sequences; 4,053,984 total letters Searching.done Score E Sequences producing significant alignments: (bits) Value embl|AE004330|AE004330 Vibrio cholerae O1 biovar eltor str. N169... 129 6e-31 embl|AE004361|AE004361 Vibrio cholerae O1 biovar eltor str. N169... 27 4.1 embl|AE004219|AE004219 Vibrio cholerae O1 biovar eltor str. N169... 27 4.1 embl|AE004312|AE004312 Vibrio cholerae O1 biovar eltor str. N169... 26 6.9 embl|AE004261|AE004261 Vibrio cholerae O1 biovar eltor str. N169... 26 6.9 embl|AE004112|AE004112 Vibrio cholerae O1 biovar eltor str. N169... 26 6.9 >embl|AE004330|AE004330 Vibrio cholerae O1 biovar eltor str. N16961 chromosome I, section 238 of 251 of the complete chromosome. Length = 11523 Score = 129 bits (324), Expect = 6e-31 Identities = 101/359 (28%), Positives = 168/359 (46%), Gaps = 3/359 (0%) Frame = -2 Query: 12 QRIGIAFSGGLDTSAALLWMRQK-GAVPYAYTANLGQPDEEDYDAIPRRAMEYGAENARL 70 +++ +A+SGGLDTS + W+++ A+ A++GQ DEE + +A+ GA + Sbjct: 9503 KKVVVAYSGGLDTSVIIPWLKENYDCEVVAFVADVGQGDEE-LKGVEAKALSSGASECYI 9327 Query: 71 IDCRKQLVAEGI-AAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDG 129 +D +++ V E I ++ GA++ Y T + R V V ++ G + G Sbjct: 9326 VDLKEEFVKEYIYPTLKTGAYYEGK----YLLGTSMARPVIAKAQVEIARKVGADALAHG 9159 Query: 130 STYKGNDIERFYRYGLLTNAELQIYKPWLDTDFIDELGGRHEMSEFMIACGFDYKMSVEK 189 T KGND RF +L + PW + D ++E I C S+ K Sbjct: 9158 CTGKGNDQVRFEGAFAALAPDLHVIAPWREWDLRSREACLDYLAERNIPCA----ASLTK 8991 Query: 190 AYSTDSNMLGATHEAKDLEYLNSSVKIVNPIMGVKFWD-ESVKIPAEEVTVRFEQGHPVA 248 YS D+N A H + + L S+ N V D E AE VT++ G VA Sbjct: 8990 IYSRDAN---AWHVSTEGGVLESTWNAPNEDCWVWTVDPEQAPNEAEYVTLQVAHGEVVA 8820 Query: 249 LNGKTFSDDVEMMLEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALLHIAYERLL 308 ++G+ + +L N+ G +HG+G D +ENR++ KSRG YE PG ++ A + Sbjct: 8819 VDGEAMTP-YNALLYLNQKGAKHGVGRIDIVENRLVGMKSRGCYETPGGTIIMEALRAVE 8643 Query: 309 TGIHNEDTIEQYHAHGRQLGRLLYQGRWFDSQALMLRDSLQRWVASQITGEVTLELRRG 367 + ++ + E G + L+Y GRWF + + +A + GEV ++L +G Sbjct: 8642 QLVLDKTSFEFREELGIKASHLVYDGRWFTPLRQAVFAAADE-LAKDVNGEVVIKLYKG 8469 >embl|AE004361|AE004361 Vibrio cholerae O1 biovar eltor str. N16961 chromosome II, section 18 of 93 of the complete chromosome. Length = 10591 Score = 26.9 bits (58), Expect = 4.1 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 1/70 (1%) Frame = -3 Query: 56 IPRRAMEYGAENARLIDCRKQLV-AEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTML 114 + R + RL + + QL+ +E +AA+ G+ + TPLG AVT T + Sbjct: 3311 VANRTQDLALSLTRLQETQTQLIESEKLAALG-----GLVAGVAHEVNTPLGIAVTATSV 3147 Query: 115 VAAMKEDGVN 124 + +E +N Sbjct: 3146 IQETRESLLN 3117 >embl|AE004219|AE004219 Vibrio cholerae O1 biovar eltor str. N16961 chromosome I, section 127 of 251 of the complete chromosome. Length = 11936 Score = 26.9 bits (58), Expect = 4.1 Identities = 21/78 (26%), Positives = 36/78 (46%) Frame = -3 Query: 174 EFMIACGFDYKMSVEKAYSTDSNMLGATHEAKDLEYLNSSVKIVNPIMGVKFWDESVKIP 233 EF IAC +SV+ A S + + +HE +E N+ K+ +KF +K Sbjct: 9807 EFCIACVATPALSVKPANSACT*RVSCSHEVLIIEVANAPDKV-----RIKF----IKPA 9655 Query: 234 AEEVTVRFEQGHPVALNG 251 A+ ++ +A+NG Sbjct: 9654 ADSISCGLTLPRAIAVNG 9601 >embl|AE004312|AE004312 Vibrio cholerae O1 biovar eltor str. N16961 chromosome I, section 220 of 251 of the complete chromosome. Length = 12625 Score = 26.2 bits (56), Expect = 6.9 Identities = 16/50 (32%), Positives = 20/50 (40%) Frame = +2 Query: 96 GLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYKGNDIERFYRYGL 145 GL F R + G VA + + WGD E+ YRYGL Sbjct: 6245 GLWRFQIARRSRRLAGLAAVACHRTALIGGWGDFRFNPTAPAEKRYRYGL 6394 >embl|AE004261|AE004261 Vibrio cholerae O1 biovar eltor str. N16961 chromosome I, section 169 of 251 of the complete chromosome. Length = 10038 Score = 26.2 bits (56), Expect = 6.9 Identities = 20/60 (33%), Positives = 29/60 (48%) Frame = +2 Query: 56 IPRRAMEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLV 115 IPRRA + LVAE +A CGA+H +T L T +G++++ M V Sbjct: 1706 IPRRAQNF-------------LVAE-MAKTLCGAYHKSTQMLVAEAGTGIGKSLSYLMAV 1843 >embl|AE004112|AE004112 Vibrio cholerae O1 biovar eltor str. N16961 chromosome I, section 20 of 251 of the complete chromosome. Length = 19042 Score = 26.2 bits (56), Expect = 6.9 Identities = 12/36 (33%), Positives = 20/36 (55%) Frame = +3 Query: 267 IGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALLHI 302 IGG H +G+ +Q E+ + A S + + LLH+ Sbjct: 5025 IGGDHQIGLCEQCEHLLQRAFSHQV*DGVSECLLHL 5132 Database: vc Posted date: Nov 14, 2006 2:54 PM Number of letters in database: 4,053,984 Number of sequences in database: 344 Lambda K H 0.317 0.135 0.397 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,855,052 Number of Sequences: 344 Number of extensions: 24296 Number of successful extensions: 95 Number of sequences better than 10.0: 6 Number of HSP's better than 10.0 without gapping: 17 Number of HSP's successfully gapped in prelim test: 8 Number of HSP's that attempted gapping in prelim test: 74 Number of HSP's gapped (non-prelim): 29 length of query: 447 length of database: 1,351,328 effective HSP length: 89 effective length of query: 358 effective length of database: 1,320,712 effective search space: 472814896 effective search space used: 472814896 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: 55 (25.8 bits)