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

Searching.done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE006134|AE006134 Pasteurella multocida subsp. multocida st...   293   3e-81
embl|AE006169|AE006169 Pasteurella multocida subsp. multocida st...    25   2.8  
embl|AE006123|AE006123 Pasteurella multocida subsp. multocida st...    25   3.7  

>embl|AE006134|AE006134 Pasteurella multocida subsp. multocida str. Pm70
             section 101 of 204 of the complete genome.
          Length = 11667

 Score =  293 bits (751), Expect = 3e-81
 Identities = 141/193 (73%), Positives = 169/193 (87%)
 Frame = -3

Query: 1     MRLCDRDIEAWLDEGRLSINPRPPVERINGATVDVRLGNKFRTFRGHTAAFIDLSGPKDE 60
             MRLCD DIE +LD+G +++ PRP  ++INGAT+DVRLGN FR FR H+A +IDLSGPK++
Sbjct: 10843 MRLCDTDIERYLDDGIIALTPRPSNDKINGATIDVRLGNSFRVFREHSAPYIDLSGPKEQ 10664

Query: 61    VSAALDRVMSDEIVLDEGEAFYLHPGELALAVTLESVTLPADLVGWLDGRSSLARLGLMV 120
             VSA L+ VMS+EI++ E +AF+LHPGELALA TLESV LPA+++GWLDGRSSLARLGLMV
Sbjct: 10663 VSAQLESVMSEEILIGENDAFFLHPGELALATTLESVKLPANIIGWLDGRSSLARLGLMV 10484

Query: 121   HVTAHRIDPGWSGCIVLEFYNSGKLPLALRPGMLIGALSFEPLSGPAVRPYNRREDAKYR 180
             HVTAHRIDPGW G IVLEF+NSGKLPLALRP M+IGALSFE LSG A RPY+ R++AKY+
Sbjct: 10483 HVTAHRIDPGWEGRIVLEFFNSGKLPLALRPNMVIGALSFEILSGYAARPYSSRKNAKYK 10304

Query: 181   NQQGAVASRIDKD 193
             NQQ AVASRID+D
Sbjct: 10303 NQQSAVASRIDED 10265


>embl|AE006169|AE006169 Pasteurella multocida subsp. multocida str.
            Pm70 section 136 of 204 of the complete genome.
          Length = 11202

 Score = 25.0 bits (53), Expect = 2.8
 Identities = 21/100 (21%), Positives = 45/100 (45%), Gaps = 12/100 (12%)
 Frame = +1

Query: 53   DLSGPKDEVSAALDRVMS--DEIVLDEGEAFY--LHPGE----LALAVTLESVTLPADLV 104
            D++G K     ++++++     ++L   + FY  L   +    L+     +   +PA+  
Sbjct: 7315 DVAGEKKIARVSMEQLLQWQPSVILTHDKNFYELLKTADVWQQLSAVKNKQFYLVPAEPF 7494

Query: 105  GWLDGRSSLARL----GLMVHVTAHRIDPGWSGCIVLEFY 140
            GWLD   S+ RL     L  H  A ++D      ++ +++
Sbjct: 7495 GWLDQPPSVNRLLGAVWLAHHFAAEKVDAKQYAMLINDYF 7614


>embl|AE006123|AE006123 Pasteurella multocida subsp. multocida str. Pm70
             section 90 of 204 of the complete genome.
          Length = 11950

 Score = 24.6 bits (52), Expect = 3.7
 Identities = 23/74 (31%), Positives = 31/74 (41%), Gaps = 6/74 (8%)
 Frame = -2

Query: 29    NGATVDVRLGNKFRTFRGHTAAFIDLSG----PKDEVSAALDRVMSDEIVLDEGEAF--Y 82
             N    DV   +KF+T +GH  A    SG    P   +S    R +   +   +  AF  Y
Sbjct: 11040 NNDLTDVLALSKFKTLQGHLVAENLKSGSLLSPSTVISPNDSRFLLSSLDTKQEIAFRVY 10861

Query: 83    LHPGELALAVTLES 96
             L P E  +  TL S
Sbjct: 10860 LKPTERYILDTLRS 10819


  Database: pm
    Posted date:  Oct 1, 2006 10:25 PM
  Number of letters in database: 2,269,587
  Number of sequences in database:  204
  
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: 432,376
Number of Sequences: 204
Number of extensions: 5396
Number of successful extensions: 22
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 10
Number of HSP's gapped (non-prelim): 13
length of query: 193
length of database: 756,529
effective HSP length: 77
effective length of query: 116
effective length of database: 740,821
effective search space: 85935236
effective search space used: 85935236
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: 48 (23.1 bits)