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= Os04g0617400 Os04g0617400|J065085G01
         (131 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0617400  Conserved hypothetical protein                       97   4e-21

>Os04g0617400 Conserved hypothetical protein
          Length = 131

 Score = 96.7 bits (239), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 65/131 (49%), Positives = 65/131 (49%)

Query: 1   MGWRKRNDDXXXXXXAAVPRGCVALLLVGDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 60
           MGWRKRNDD      AAVPRGCVALLLVGD                              
Sbjct: 1   MGWRKRNDDGGGGGGAAVPRGCVALLLVGDGGGGGEEIRWWWRCGRWGSRGWGCCWRGRR 60

Query: 61  XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGLGARGDADVRPRARAYMYASVRRPGAAGL 120
                                         GLGARGDADVRPRARAYMYASVRRPGAAGL
Sbjct: 61  GSTGTTRRASCASPAPPTSSDEPSPPTPPPGLGARGDADVRPRARAYMYASVRRPGAAGL 120

Query: 121 GLGMYLRKCNI 131
           GLGMYLRKCNI
Sbjct: 121 GLGMYLRKCNI 131



  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
   0.326    0.144    0.460 

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: 2,394,621
Number of extensions: 50673
Number of successful extensions: 135
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 1
Length of query: 131
Length of database: 17,035,801
Length adjustment: 89
Effective length of query: 42
Effective length of database: 12,388,755
Effective search space: 520327710
Effective search space used: 520327710
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 150 (62.4 bits)