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= Os04g0402700 Os04g0402700|AK058995
         (90 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0402700  Conserved hypothetical protein                      120   2e-28

>Os04g0402700 Conserved hypothetical protein
          Length = 90

 Score =  120 bits (302), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 63/90 (70%), Positives = 63/90 (70%)

Query: 1  MQAARRCHYSRRRATGWLDPXXXXXXXXXXXXXXRRGWLDPXXXXXXXXXXXXXICSRGG 60
          MQAARRCHYSRRRATGWLDP              RRGWLDP             ICSRGG
Sbjct: 1  MQAARRCHYSRRRATGWLDPASAAGGVAGSGISSRRGWLDPASAAGGVAGSDVSICSRGG 60

Query: 61 SALTAGMVQRQRRWAPSSASYRGSGGRHPR 90
          SALTAGMVQRQRRWAPSSASYRGSGGRHPR
Sbjct: 61 SALTAGMVQRQRRWAPSSASYRGSGGRHPR 90



  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
   0.324    0.134    0.469 

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: 2,786,100
Number of extensions: 80523
Number of successful extensions: 316
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 316
Number of HSP's successfully gapped: 1
Length of query: 90
Length of database: 17,035,801
Length adjustment: 60
Effective length of query: 30
Effective length of database: 13,902,961
Effective search space: 417088830
Effective search space used: 417088830
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 149 (62.0 bits)