BLASTP 2.2.18 [Mar-02-2008]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0001.0618.p
         (350 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309990|ref|YP_003774082.1| recombinase A protein [Herbaspi...   665   0.0  

>gi|300309990|ref|YP_003774082.1| recombinase A protein
           [Herbaspirillum seropedicae SmR1]
          Length = 351

 Score =  665 bits (1716), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/349 (99%), Positives = 348/349 (99%), Gaps = 1/349 (0%)

Query: 1   MDDKKAANNSEKSKALAAALAQIEKQFGKGSVMRMEDGVIAEEIQAVSTGSLGLDIALGI 60
           MDDKKAANNSEKSKALAAALAQIEKQFGKGSVMRMEDGVIAEEIQAVSTGSLGLDIALGI
Sbjct: 1   MDDKKAANNSEKSKALAAALAQIEKQFGKGSVMRMEDGVIAEEIQAVSTGSLGLDIALGI 60

Query: 61  GGLPRGRVIEIYGPESSGKTTLTLQSIAEMQKLGGTCAFIDAEHALDVTYAQKLGVNLND 120
           GGLPRGRVIEIYGPESSGKTTLTLQSIAEMQKLGGTCAFIDAEHALDVTYAQKLGVNLND
Sbjct: 61  GGLPRGRVIEIYGPESSGKTTLTLQSIAEMQKLGGTCAFIDAEHALDVTYAQKLGVNLND 120

Query: 121 LLISQPDTGEQALEICDALVRSGAVDLIVVDSVAALTPKAEIEGDMGDSLPGLQARLMSQ 180
           LLISQPDTGEQALEICDALVRSGAVDLIVVDSVAALTPKAEIEGDMGDSLPGLQARLMSQ
Sbjct: 121 LLISQPDTGEQALEICDALVRSGAVDLIVVDSVAALTPKAEIEGDMGDSLPGLQARLMSQ 180

Query: 181 ALRKLTGSINRTNTTVIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRTGSIKS 240
           ALRKLTGSINRTNTTVIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRTGSIKS
Sbjct: 181 ALRKLTGSINRTNTTVIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRTGSIKS 240

Query: 241 GDEVIGSETKVKVVKNKVAPPFREAHFDILYGEGTSREGEILDLGSEHKVVEKSGAWYSY 300
           GDEVIGSETKVKVVKNKVAPPFREAHFDILYGEGTSREGEILDLGSEHKVVEKSGAWYSY
Sbjct: 241 GDEVIGSETKVKVVKNKVAPPFREAHFDILYGEGTSREGEILDLGSEHKVVEKSGAWYSY 300

Query: 301 NGERIGQGKDNARNYLKEHPELAREIENKVRVALGVPELAAGGEAEAQA 349
           NGERIGQGKDNARNYLKEHPELAREIENKVRVALGVPEL AGGEAEA+A
Sbjct: 301 NGERIGQGKDNARNYLKEHPELAREIENKVRVALGVPEL-AGGEAEAEA 348


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.313    0.132    0.361 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 884,883
Number of extensions: 34988
Number of successful extensions: 162
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 1
Length of query: 350
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 264
Effective length of database: 1,212,660
Effective search space: 320142240
Effective search space used: 320142240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 131 (55.1 bits)