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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= b0215 name description
(243 letters)

Database: pm
204 sequences; 2,269,587 total letters

Searching.done

Score E
Sequences producing significant alignments: (bits) Value

embl|AE006046|AE006046 Pasteurella multocida subsp. multocida st... 293 6e-81
embl|AE006138|AE006138 Pasteurella multocida subsp. multocida st... 33 0.011
embl|AE006194|AE006194 Pasteurella multocida subsp. multocida st... 27 1.4
embl|AE006055|AE006055 Pasteurella multocida subsp. multocida st... 26 1.8
embl|AE006057|AE006057 Pasteurella multocida subsp. multocida st... 24 8.8

>embl|AE006046|AE006046 Pasteurella multocida subsp. multocida str.
Pm70 section 13 of 204 of the complete genome.
Length = 10484

Score = 293 bits (750), Expect = 6e-81
Identities = 151/237 (63%), Positives = 179/237 (75%), Gaps = 1/237 (0%)
Frame = -1

Query: 6 TRQIVLDTETTGMNQIGAHYEGHKIIEIGAVEVVNRRLTGNNFHVYLKPDRLVDPEAFGV 65
TRQIVLDTETTGMNQ GAHYEGH IIEIGAVE++NRRLTGNNFH+Y+KP+R VDP+A V
Sbjct: 995 TRQIVLDTETTGMNQFGAHYEGHCIIEIGAVEMINRRLTGNNFHIYIKPNRPVDPDAIKV 816

Query: 66 HGIADEFLLDKPTFAEVADEFMDYIRGAELVIHNAAFDIGFMDYEFSLLKRDIPKTNTFC 125
HGI DE L DKP F EVA +F+DYI+GAEL+IHNA FD+GFMDYEF L +I T+ C
Sbjct: 815 HGITDEMLADKPMFNEVAQQFIDYIQGAELLIHNAPFDVGFMDYEFKKLNLNI-NTDAIC 639

Query: 126 KVTDSLAVARKMFPGKRNSLDALCARYEIDNSKRTLHGALLDAQILAEVYLAMTGGQTSM 185
VTD+L +AR+M+PGKRNSLDALC R IDNSKRTLHGALLDA+ILA+VYL MTGGQTS+
Sbjct: 638 MVTDTLQMARQMYPGKRNSLDALCDRLGIDNSKRTLHGALLDAEILADVYLTMTGGQTSL 459

Query: 186 AFAMEGETXXXXGEATIQRIVRQASKLRVVFATDEEIAAHEARLDLVQKKG-GSCLW 241
E E + IQ V + L+ + +E+ AH L L+ KK G+CLW
Sbjct: 458 FDENEPEIAVVAVQEQIQSAVAFSQDLKRLQPNADELQAHLDYLLLLNKKSKGNCLW 288


>embl|AE006138|AE006138 Pasteurella multocida subsp. multocida str.
Pm70 section 105 of 204 of the complete genome.
Length = 11115

Score = 33.5 bits (75), Expect = 0.011
Identities = 45/188 (23%), Positives = 77/188 (40%), Gaps = 18/188 (9%)
Frame = +1

Query: 9 IVLDTETTGMNQIGAHYEGHKIIEIGAVEVVNRR----LTGNNFHVYLKP--DRLVDPEA 62
+++D ET G N + ++E+ A+ V + H +++P ++PE+
Sbjct: 655 VIIDVETAGFNA-----KTDALLELAAITVKMNEDGLLVPDQTCHFHIEPFAGANINPES 819

Query: 63 FGVHGIADEFLLDKPTFAEVA-DEFMDYIRGAE---------LVIHNAAFDIGFMDYEFS 112
+GI L VA E +R A+ +V HNAAFD F+ +
Sbjct: 820 LQFNGIDIHNPLRGAVSETVAITELFKMVRKAQKAADCQRSIIVAHNAAFDQSFL---MA 990

Query: 113 LLKRDIPKTNTF--CKVTDSLAVARKMFPGKRNSLDALCARYEIDNSKRTLHGALLDAQI 170
+R K N F + D+ ++ MF + L C +I + H AL D +
Sbjct: 991 AAERTGVKRNPFHPFGMFDTATLSGFMF--GQTVLVKACQAAQIAFDGKQAHSALYDTER 1164

Query: 171 LAEVYLAM 178
AE++ M
Sbjct: 1165TAELFCYM 1188


>embl|AE006194|AE006194 Pasteurella multocida subsp. multocida str.
Pm70 section 161 of 204 of the complete genome.
Length = 10533

Score = 26.6 bits (57), Expect = 1.4
Identities = 14/47 (29%), Positives = 24/47 (51%)
Frame = +1

Query: 18 MNQIGAHYEGHKIIEIGAVEVVNRRLTGNNFHVYLKPDRLVDPEAFG 64
+NQ + +GH + IG + + G+ F V +KP+ EA+G
Sbjct: 949 VNQPLEYLQGHNNLVIGLENALEGKAVGDKFEVRVKPE-----EAYG 1074


>embl|AE006055|AE006055 Pasteurella multocida subsp. multocida str.
Pm70 section 22 of 204 of the complete genome.
Length = 10811

Score = 26.2 bits (56), Expect = 1.8
Identities = 13/46 (28%), Positives = 25/46 (54%)
Frame = -1

Query: 77 PTFAEVADEFMDYIRGAELVIHNAAFDIGFMDYEFSLLKRDIPKTN 122
P F ++A EF+ + + +A + MD+E++ L ++ KTN
Sbjct: 5321 PYFQDIAGEFLTF---CQTQTDFSADILALMDFEYTQLLAEVEKTN 5193


>embl|AE006057|AE006057 Pasteurella multocida subsp. multocida str.
Pm70 section 24 of 204 of the complete genome.
Length = 12201

Score = 23.9 bits (50), Expect = 8.8
Identities = 11/31 (35%), Positives = 17/31 (54%)
Frame = -1

Query: 43 LTGNNFHVYLKPDRLVDPEAFGVHGIADEFL 73
L GN FH++L+P + E HG +F+
Sbjct: 4539 LLGNTFHLWLRPGQ----EVMRKHGDLHDFM 4459


Database: pm
Posted date: Sep 29, 2006 7:57 PM
Number of letters in database: 2,269,587
Number of sequences in database: 204

Lambda K H
0.322 0.136 0.391

Gapped
Lambda K H
0.267 0.0410 0.140


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 462,262
Number of Sequences: 204
Number of extensions: 5160
Number of successful extensions: 24
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 10
Number of HSP's gapped (non-prelim): 16
length of query: 243
length of database: 756,529
effective HSP length: 79
effective length of query: 164
effective length of database: 740,413
effective search space: 121427732
effective search space used: 121427732
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: 50 (23.9 bits)