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= Os04g0469300 Os04g0469300|J065186H01
         (132 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0469300  Conserved hypothetical protein                      107   2e-24

>Os04g0469300 Conserved hypothetical protein
          Length = 132

 Score =  107 bits (268), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 67/132 (50%), Positives = 67/132 (50%)

Query: 1   MKQKIVIKVCAPCEGCRXXXXXXXXXXXDGVISLAITGDDRDKLEXXXXXXXXTRLVICL 60
           MKQKIVIKVCAPCEGCR           DGVISLAITGDDRDKLE        TRLVICL
Sbjct: 1   MKQKIVIKVCAPCEGCRAKALEVAARAADGVISLAITGDDRDKLEVVGVGVDVTRLVICL 60

Query: 61  RKKVCYAEILLVXXXXXXXXXXXXXXXXXXXXXXXXXXXXDPTCKXXXXXXXXXXXXXXX 120
           RKKVCYAEILLV                            DPTCK               
Sbjct: 61  RKKVCYAEILLVEEEKEEEEKKEPECKPCYWPPYWCPPPEDPTCKPCYPRYSYAPPPPAV 120

Query: 121 XXXDEPSACSIM 132
              DEPSACSIM
Sbjct: 121 VVCDEPSACSIM 132



  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    0.141    0.442 

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: 2,107,709
Number of extensions: 35159
Number of successful extensions: 62
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 1
Length of query: 132
Length of database: 17,035,801
Length adjustment: 90
Effective length of query: 42
Effective length of database: 12,336,541
Effective search space: 518134722
Effective search space used: 518134722
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)