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= 0037.0009.p
         (239 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311224|ref|YP_003775316.1| DNA repair photolyase [Herbaspi...   160   8e-41

>gi|300311224|ref|YP_003775316.1| DNA repair photolyase
           [Herbaspirillum seropedicae SmR1]
          Length = 417

 Score =  160 bits (405), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 75/116 (64%), Positives = 91/116 (78%), Gaps = 4/116 (3%)

Query: 106 ARKGRGAVSNMQGRYEVEQRVGFDDGWGVPEPENGE----TDEGGEPAALRTIITEETAR 161
           A+KGRGAV+N++GRYE   R  FDDGW       GE     ++  EPA L+TI+TEETA+
Sbjct: 41  AQKGRGAVTNLRGRYESVSREEFDDGWQPMRWAEGEGAAALEQDEEPARLKTIVTEETAK 100

Query: 162 TIISRNKSPDLPFNASLNPYRGCEHGCVYCFARPTHAYLGLSPGLDFESRIPKSTS 217
           +IISRN SPDLPF+ SLNPYRGCEHGC+YCFARP+H+YLGLSPGLDFESR+   T+
Sbjct: 101 SIISRNTSPDLPFSLSLNPYRGCEHGCIYCFARPSHSYLGLSPGLDFESRLVAKTN 156


  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
   0.317    0.135    0.409 

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: 689,193
Number of extensions: 26856
Number of successful extensions: 54
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 53
Number of HSP's successfully gapped: 1
Length of query: 239
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 157
Effective length of database: 1,231,600
Effective search space: 193361200
Effective search space used: 193361200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 129 (54.3 bits)