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= P00811
         (377 letters)

Database: vc 
           344 sequences; 4,053,984 total letters

Searching.done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE004315|AE004315 Vibrio cholerae O1 biovar eltor str. N169...    27   2.5  
embl|AE004247|AE004247 Vibrio cholerae O1 biovar eltor str. N169...    27   3.3  
embl|AE004359|AE004359 Vibrio cholerae O1 biovar eltor str. N169...    26   5.6  
embl|AE004299|AE004299 Vibrio cholerae O1 biovar eltor str. N169...    26   5.6  
embl|AE004427|AE004427 Vibrio cholerae O1 biovar eltor str. N169...    25   9.6  
embl|AE004268|AE004268 Vibrio cholerae O1 biovar eltor str. N169...    25   9.6  

>embl|AE004315|AE004315 Vibrio cholerae O1 biovar eltor str. N16961
             chromosome I, section 223 of 251 of the complete
             chromosome.
          Length = 12615

 Score = 27.3 bits (59), Expect = 2.5
 Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
 Frame = -3

Query: 225   VHVSPGALDAEAYGVKSTIEDMARWVQSNLKPLDINEKTLQQGIQLAQS--RYWQTGDMY 282
             VHV    +D +   +   I+ + +  Q+ L P+      L + I L +    YWQ G  Y
Sbjct: 11764 VHVGQLKVDLDGNSLLG-IQVVNQLAQAGLGPISAEAAQLVEQINLQEETIEYWQLGFGY 11588

Query: 283   QGLGWEM 289
             +G  W +
Sbjct: 11587 RGEQWSL 11567


>embl|AE004247|AE004247 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 155 of 251 of the complete
            chromosome.
          Length = 11034

 Score = 26.9 bits (58), Expect = 3.3
 Identities = 13/42 (30%), Positives = 22/42 (52%)
 Frame = -1

Query: 78   LGSVSKTFTGVLGGDAIARGEIKLSDPTTKYWPELTAKQWNG 119
            +  +   + GVLG   + R   K+S   ++YW  +T + WNG
Sbjct: 2586 ISKIPHQWAGVLGTLIMQR*PSKISKRMSRYWRSVT-QNWNG 2464


>embl|AE004359|AE004359 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome II, section 16 of 93 of the complete
            chromosome.
          Length = 11095

 Score = 26.2 bits (56), Expect = 5.6
 Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
 Frame = +3

Query: 279  GDMYQGL--GWEMLDWPVNPDSIINGSDNKIALAARPVKAITPPTPAVRASWVHKTGATG 336
            G +YQ     W+  ++P+    +I   +       RP++++ P  P  R+   H++  T 
Sbjct: 5967 GRLYQSQHNAWQ*DEFPLGKAVLIRWREAHH*QKRRPLRSLLPSGPFYRSIGNHESAKTA 6146

Query: 337  GFG 339
            G+G
Sbjct: 6147 GWG 6155


>embl|AE004299|AE004299 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 207 of 251 of the complete
            chromosome.
          Length = 15309

 Score = 26.2 bits (56), Expect = 5.6
 Identities = 11/24 (45%), Positives = 16/24 (66%)
 Frame = -3

Query: 331  KTGATGGFGSYVAFIPEKELGIVM 354
            +TG + G G ++AFI  K  GIV+
Sbjct: 5854 RTGISAGIGLFLAFIALKNAGIVV 5783


>embl|AE004427|AE004427 Vibrio cholerae O1 biovar eltor str. N16961
             chromosome II, section 84 of 93 of the complete
             chromosome.
          Length = 13363

 Score = 25.4 bits (54), Expect = 9.6
 Identities = 10/18 (55%), Positives = 13/18 (72%)
 Frame = -3

Query: 310   AARPVKAITPPTPAVRAS 327
             AA P+ +  PPTPAVR +
Sbjct: 10760 AAEPIDSKLPPTPAVRVT 10707


>embl|AE004268|AE004268 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 176 of 251 of the complete
            chromosome.
          Length = 10401

 Score = 25.4 bits (54), Expect = 9.6
 Identities = 20/81 (24%), Positives = 34/81 (41%)
 Frame = +2

Query: 262  KTLQQGIQLAQSRYWQTGDMYQGLGWEMLDWPVNPDSIINGSDNKIALAARPVKAITPPT 321
            K L QG Q+ +       +  QGL  ++L   +    ++  S+N+  + A   + + PP 
Sbjct: 1859 KYLYQGFQILRKAV----EPRQGLPCDLLLARLRKSLVLLVSENRCRMNAHHERFVQPP* 2026

Query: 322  PAVRASWVHKTGATGGFGSYV 342
              VR  W       G   SY+
Sbjct: 2027 VRVRQKWATLHFFLGSS*SYI 2089


  Database: vc
    Posted date:  Dec 23, 2006  3:09 PM
  Number of letters in database: 4,053,984
  Number of sequences in database:  344
  
Lambda     K      H
   0.317    0.133    0.414 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,939,068
Number of Sequences: 344
Number of extensions: 28707
Number of successful extensions: 151
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 119
Number of HSP's gapped (non-prelim): 48
length of query: 377
length of database: 1,351,328
effective HSP length: 87
effective length of query: 290
effective length of database: 1,321,400
effective search space: 383206000
effective search space used: 383206000
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: 54 (25.4 bits)