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= ASPG2_ECOLI 
         (348 letters)

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

Searching.done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE004274|AE004274 Vibrio cholerae O1 biovar eltor str. N169...    80   3e-16
embl|AE004114|AE004114 Vibrio cholerae O1 biovar eltor str. N169...    26   5.0  

>embl|AE004274|AE004274 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 182 of 251 of the complete
            chromosome.
          Length = 10732

 Score = 80.1 bits (196), Expect = 3e-16
 Identities = 76/282 (26%), Positives = 120/282 (42%), Gaps = 14/282 (4%)
 Frame = +2

Query: 80   SQDMNDNVWLTLAKKINTDCDKTDGFVITHGTDTMEETAYFLDLTVK-CDKPVVMVGAMR 138
            S DM    W  +A  I  + DK DGFVI HGTDTM  TA  L    +   KPV++ G+  
Sbjct: 5399 SSDMTPADWQLIADDIAANYDKYDGFVILHGTDTMAYTASALSFMFENLGKPVIVTGSQI 5578

Query: 139  PSTSMSADGPFNLYNAVVTAADKASANRGVLVVMNDTVLDGRDVTKTNTTDVATFKSVNY 198
            P   + +DG  NL NA+  AA+       V +  N+ ++ G    K++    + F S N 
Sbjct: 5579 PLADLRSDGQANLLNALHVAANYPI--NEVTLFFNNRLMRGNRSRKSHADGFSAFSSPNL 5752

Query: 199  GPL-------GYIHNGKIDYQRTPARKHTSDTPFDVSKLNELPKVGIVYNYANASDL-PA 250
             PL           N K+D + +   K    TP  +  +   P  GI +     + L P 
Sbjct: 5753 PPLLEAGINIELSTNVKVDEKPSGEFKVNPITPQPIGVITMYP--GISHEVIRNTLLQPV 5926

Query: 251  KALVDAGYDGIVSAGVGNGNLYKSVFDTLATAAKTGTAVVR-----SSRVPTGATTQDAE 305
             A++      +++ GVGN      +   L  A++ G  VV      + +V  G       
Sbjct: 5927 NAMI------LLTFGVGNAPQNPELLAQLKAASERGVIVVNLTQCLAGKVNMGGYATGCA 6088

Query: 306  VDDAKYGFVASGTLNPQKARVLLQLALTQTKDPQQIQQIFNQ 347
            + DA  G ++   + P+ A   L   L+Q    ++++    Q
Sbjct: 6089 LADA--GVISGYDMTPEAALAKLHYLLSQNLSYEEVKAKMQQ 6208


>embl|AE004114|AE004114 Vibrio cholerae O1 biovar eltor str. N16961
           chromosome I, section 22 of 251 of the complete
           chromosome.
          Length = 10146

 Score = 26.2 bits (56), Expect = 5.0
 Identities = 12/34 (35%), Positives = 23/34 (67%), Gaps = 3/34 (8%)
 Frame = +2

Query: 42  ATKSNYTVGKVGVE---NLVNAVPQLKDIANVKG 72
           AT +  ++G++ V+   N + A+P+L D+ +VKG
Sbjct: 743 ATANGMSIGQLKVDSKSNEITAIPKLLDLLDVKG 844


  Database: vc
    Posted date:  Oct 2, 2006 11:51 PM
  Number of letters in database: 4,053,984
  Number of sequences in database:  344
  
Lambda     K      H
   0.314    0.130    0.366 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,147,297
Number of Sequences: 344
Number of extensions: 12974
Number of successful extensions: 42
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 28
Number of HSP's gapped (non-prelim): 14
length of query: 348
length of database: 1,351,328
effective HSP length: 87
effective length of query: 261
effective length of database: 1,321,400
effective search space: 344885400
effective search space used: 344885400
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)