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= dcd_ecoli descripsion       
         (193 letters)

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

Searching.done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE004411|AE004411 Vibrio cholerae O1 biovar eltor str. N169...    25   3.7  
embl|AE004289|AE004289 Vibrio cholerae O1 biovar eltor str. N169...    25   6.3  
embl|AE004228|AE004228 Vibrio cholerae O1 biovar eltor str. N169...    25   6.3  
embl|AE004191|AE004191 Vibrio cholerae O1 biovar eltor str. N169...    25   6.3  
embl|AE004147|AE004147 Vibrio cholerae O1 biovar eltor str. N169...    25   6.3  

>embl|AE004411|AE004411 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome II, section 68 of 93 of the complete
            chromosome.
          Length = 10574

 Score = 25.4 bits (54), Expect = 3.7
 Identities = 10/34 (29%), Positives = 16/34 (47%)
 Frame = +1

Query: 99   LPADLVGWLDGRSSLARLGLMVHVTAHRIDPGWS 132
            +P  L  W   R+      +++    HR +PGWS
Sbjct: 1627 IPGSLASWR*NRNHRQGRCIILRSQRHRSEPGWS 1728


>embl|AE004289|AE004289 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 197 of 251 of the complete
            chromosome.
          Length = 10943

 Score = 24.6 bits (52), Expect = 6.3
 Identities = 14/39 (35%), Positives = 23/39 (58%)
 Frame = +1

Query: 154  LIGALSFEPLSGPAVRPYNRREDAKYRNQQGAVASRIDK 192
            L+G+ +   L G A +P+  R+   YRN++    SRID+
Sbjct: 2578 LLGSQANV*LMGWAFKPFCARKRLIYRNRRLLKQSRIDR 2694


>embl|AE004228|AE004228 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 136 of 251 of the complete
            chromosome.
          Length = 11656

 Score = 24.6 bits (52), Expect = 6.3
 Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
 Frame = +2

Query: 86   GELALAVTLESVTLPADLVGWLDGRSSLARLGLMVHVTAHR-----IDPGWSGCIVLEFY 140
            G+LALAVT   + +P+    ++D    +   G+M+  T  +      D G+    +L  +
Sbjct: 6269 GDLALAVTCLLLFIPSHFFSYID----IRLFGVMIPATLPQGVFALWDEGYIALALLVLF 6436

Query: 141  NSGKLPLAL 149
             S   PL L
Sbjct: 6437 CSSIAPLVL 6463


>embl|AE004191|AE004191 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 99 of 251 of the complete
            chromosome.
          Length = 11434

 Score = 24.6 bits (52), Expect = 6.3
 Identities = 12/28 (42%), Positives = 14/28 (50%)
 Frame = -1

Query: 105  GWLDGRSSLARLGLMVHVTAHRIDPGWS 132
            GW   RS+L  LGLM  +      P WS
Sbjct: 6862 GWPKTRSALLSLGLMASI*ISAALPKWS 6779


>embl|AE004147|AE004147 Vibrio cholerae O1 biovar eltor str. N16961
            chromosome I, section 55 of 251 of the complete
            chromosome.
          Length = 10856

 Score = 24.6 bits (52), Expect = 6.3
 Identities = 11/26 (42%), Positives = 16/26 (61%)
 Frame = -1

Query: 17   LSINPRPPVERINGATVDVRLGNKFR 42
            + +N + PVERIN A   + L + FR
Sbjct: 1709 VQLNDKQPVERINVAVNPIVLASPFR 1632


  Database: vc
    Posted date:  Oct 1, 2006  7:54 PM
  Number of letters in database: 4,053,984
  Number of sequences in database:  344
  
Lambda     K      H
   0.320    0.139    0.422 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 910,725
Number of Sequences: 344
Number of extensions: 12519
Number of successful extensions: 54
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 31
Number of HSP's gapped (non-prelim): 28
length of query: 193
length of database: 1,351,328
effective HSP length: 81
effective length of query: 112
effective length of database: 1,323,464
effective search space: 148227968
effective search space used: 148227968
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 (21.8 bits)
S2: 50 (23.9 bits)