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= Os05g0172800 Os05g0172800|AK108688
         (64 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os05g0172800  Conserved hypothetical protein                       90   4e-19

>Os05g0172800 Conserved hypothetical protein
          Length = 64

 Score = 89.7 bits (221), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 50/64 (78%), Positives = 50/64 (78%)

Query: 1  MAHRGXXXXXXXXXXXXXXICRIHLLRGSSRCRLPGALHRRRTIFFTAAVVQTFPRLVQA 60
          MAHRG              ICRIHLLRGSSRCRLPGALHRRRTIFFTAAVVQTFPRLVQA
Sbjct: 1  MAHRGRRSASSSSTRVTVAICRIHLLRGSSRCRLPGALHRRRTIFFTAAVVQTFPRLVQA 60

Query: 61 SIIA 64
          SIIA
Sbjct: 61 SIIA 64



  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
   0.339    0.144    0.450 

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: 1,531,644
Number of extensions: 34185
Number of successful extensions: 130
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 1
Length of query: 64
Length of database: 17,035,801
Length adjustment: 36
Effective length of query: 28
Effective length of database: 15,156,097
Effective search space: 424370716
Effective search space used: 424370716
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.9 bits)
S2: 149 (62.0 bits)