BLASTP 2.2.23 [Feb-03-2010]


Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= Os02g0178700 Os02g0178700|AK110943
         (210 letters)

Database: rap3 
           52,214 sequences; 17,035,801 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os02g0178700  Helix-loop-helix DNA-binding domain containing...   214   4e-56

>Os02g0178700 Helix-loop-helix DNA-binding domain containing protein
          Length = 210

 Score =  214 bits (545), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 118/210 (56%), Positives = 118/210 (56%)

Query: 1   MRGPSTTTMATFKQSFXXXXXXXXXXXXXXXAAMSTLSERKRAIKSSADXXXXXXXXXXX 60
           MRGPSTTTMATFKQSF               AAMSTLSERKRAIKSSAD           
Sbjct: 1   MRGPSTTTMATFKQSFLKNLLSSLKSSSKNKAAMSTLSERKRAIKSSADIAMATARTGIA 60

Query: 61  XXXXWPHAILAXXXXXXXXXXXXXXXXXMPRTTFPCKMMQGXXXXXXXXXXXXXTPLMSS 120
               WPHAILA                 MPRTTFPCKMMQG             TPLMSS
Sbjct: 61  GAARWPHAILASSSSSSSSSSSSSSSSSMPRTTFPCKMMQGKVRRRCKSIVRRRTPLMSS 120

Query: 121 SSEVAXXXXXXXXXXXXXMIPGGELIADEISLLHEAMDYVVHLHAQVDVLXXXXXXXXXX 180
           SSEVA             MIPGGELIADEISLLHEAMDYVVHLHAQVDVL          
Sbjct: 121 SSEVARRLVKKRDKVLRRMIPGGELIADEISLLHEAMDYVVHLHAQVDVLRRVSRAAVAR 180

Query: 181 XXXXXXXXXGGLAQLKERTVQISGETENPC 210
                    GGLAQLKERTVQISGETENPC
Sbjct: 181 RSSASSSSSGGLAQLKERTVQISGETENPC 210



  Database: rap3
    Posted date:  Nov 19, 2010  6:03 PM
  Number of letters in database: 17,035,801
  Number of sequences in database:  52,214
  
Lambda     K      H
   0.317    0.127    0.365 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 3,086,811
Number of extensions: 50183
Number of successful extensions: 87
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 85
Number of HSP's successfully gapped: 1
Length of query: 210
Length of database: 17,035,801
Length adjustment: 96
Effective length of query: 114
Effective length of database: 12,023,257
Effective search space: 1370651298
Effective search space used: 1370651298
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 (21.7 bits)
S2: 154 (63.9 bits)