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= 0002.0036.p
         (277 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311186|ref|YP_003775278.1| deoxyribodipyrimidine photolyas...   104   7e-24

>gi|300311186|ref|YP_003775278.1| deoxyribodipyrimidine photolyase
           [Herbaspirillum seropedicae SmR1]
          Length = 494

 Score =  104 bits (260), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 73/228 (32%), Positives = 111/228 (48%), Gaps = 25/228 (10%)

Query: 12  SRLSAHLAFGTISMRSVHQATELAIEHTADRELAYGLRGFSSRLRWHCHFMQKLEDQPDI 71
           S LS HL FGTIS+R++ +A   A++     + A G   + S L W   +   L   P +
Sbjct: 250 SYLSVHLRFGTISIRTLARA---AMQAMHAGQGAAGAAVWLSELTWRDFYFMILHHHPRV 306

Query: 72  EWRNVARSLDGLRPGDGGPW--GAEAQARFDAWCEGRTGYPMIDACMRQLCATGWLNFRM 129
                    D ++      W  G +A+A F AWCEGRTGYP++DA M Q+  +G+++ R+
Sbjct: 307 TRHAFKPEYDAIQ------WEQGPQAEALFAAWCEGRTGYPLVDAAMAQINQSGYMHNRL 360

Query: 130 RAMLVSFAAYHLWLHWRAPGLFLARQFLDFEPGIH---WSQMQMQSGTTGINTLRIYSPA 186
           R ++ SF    L + WR    + AR   DF+   +   W Q    SG       RI++P 
Sbjct: 361 RMVVASFLTKDLGIDWRWGERYFARHLNDFDLAANNGGW-QWASSSGCDAQPYFRIFNPV 419

Query: 187 KQARDHDPLGEYVRRWVPELGT----------AAYPDPIVDEKTALKQ 224
            Q+   DP G+++RR++P+L             A PD  +D    L Q
Sbjct: 420 TQSEKFDPDGKFIRRYLPQLAKLSNKRIHAPWTATPDERMDAGVVLGQ 467


  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
   0.321    0.134    0.433 

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: 956,160
Number of extensions: 39414
Number of successful extensions: 98
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 1
Length of query: 277
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 193
Effective length of database: 1,222,130
Effective search space: 235871090
Effective search space used: 235871090
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 130 (54.7 bits)