TBLASTN 2.2.15 [Oct-15-2006]


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= PYRD_ECOLI Dihydroorotate dehydrogenase 
         (336 letters)

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

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE006098|AE006098 Pasteurella multocida subsp. multocida st...   399   e-113

>embl|AE006098|AE006098 Pasteurella multocida subsp. multocida str.
            Pm70 section 65 of 204 of the complete genome.
          Length = 10687

 Score =  399 bits (1026), Expect = e-113
 Identities = 202/337 (59%), Positives = 246/337 (72%), Gaps = 3/337 (0%)
 Frame = -3

Query: 3    YPFVRKALFQLDPERAHEFTFQQLRRITGTPFEALVRQKVPA---KPVNCMGLTFKNPLG 59
            Y  +RKALF LD E+AH+ T + L+ +  +PF  L++         P   MGL FKNP+G
Sbjct: 5999 YALIRKALFSLDAEQAHDLTIKTLKTLGRSPFNPLLKTLFACPTGSPKTIMGLHFKNPIG 5820

Query: 60   LAAGLDKDGECIDALGAMGFGSIEIGTVTPRPQPGNDKPRLFRLVDAEGLINRMGFNNLG 119
            LAAG DK+GE I+   AMGFG IE+GTVTP  Q GN KPR FRL +AEG+INR GFNN G
Sbjct: 5819 LAAGADKNGEAIEGFAAMGFGFIEVGTVTPLAQEGNPKPRQFRLPEAEGIINRNGFNNYG 5640

Query: 120  VDNLVENVKKAHYDGVLGINIGKNKDTPVEQGKDDYLICMEKXXXXXXXXXXNISSPNTP 179
            +D L+ENVK A+YDG+LGINIGKN  T VE GK DYLIC+ K          NISSPN+P
Sbjct: 5639 IDYLIENVKHANYDGILGINIGKNTFTSVENGKADYLICLNKAYHYADYITINISSPNSP 5460

Query: 180  GLRTLQYGEALDDLLTAIKNKQNDLQAMHHKYVPIAVKIAPDLSEEELIQVADSLVRHNI 239
            GLR LQYGEAL+DLL  +K +Q DL   + KYVPIAVKIAPDL+E E++Q+AD+L RH +
Sbjct: 5459 GLRQLQYGEALEDLLQGVKARQKDLAEQYQKYVPIAVKIAPDLTEGEVVQIADTLQRHKM 5280

Query: 240  DGVIATNTTLDRSLVQGMKNCDQTGGLSGRPLQLKSTEIIRRLSLELNGRLPIIGVGGID 299
            D VIATNTT+ R  V G++N +Q GGLSG+PLQ KSTEII RL  EL G++PIIG GGID
Sbjct: 5279 DAVIATNTTISRDTVSGLQNAEQQGGLSGKPLQQKSTEIIARLHQELKGQIPIIGSGGID 5100

Query: 300  SVIAAREKIAAGASLVQIYSGFIFKGPPLIKEIVTHI 336
            SV  A+EKI AGA L+Q+YSG I+ GP LIK++V  I
Sbjct: 5099 SVANAQEKIKAGAELLQLYSGLIYHGPHLIKQLVQQI 4989


  Database: pmu
    Posted date:  Oct 25, 2008  5:06 PM
  Number of letters in database: 2,269,587
  Number of sequences in database:  204
  
Lambda     K      H
   0.319    0.140    0.405 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 204
Number of Hits to DB: 697,447
Number of extensions: 8597
Number of successful extensions: 27
Number of sequences better than 1.0e-03: 1
Number of HSP's gapped: 26
Number of HSP's successfully gapped: 1
Length of query: 336
Length of database: 756,529
Length adjustment: 82
Effective length of query: 254
Effective length of database: 739,801
Effective search space: 187909454
Effective search space used: 187909454
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)