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= Os05g0412300 Os05g0412300|AK107782
         (177 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os05g0412300  HMG-I and HMG-Y, DNA-binding domain containing...   143   6e-35

>Os05g0412300 HMG-I and HMG-Y, DNA-binding domain containing protein
          Length = 177

 Score =  143 bits (361), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 77/103 (74%), Positives = 77/103 (74%)

Query: 22  IHAGQGSGGAVELRWRLSSRTASDPRRRHHLEGALSPPSSHRCFYAKPRGCRSPDAGSVV 81
           IHAGQGSGGAVELRWRLSSRTASDPRRRHHLEGALSPPSSHRCFYAKPRGCRSPDAGSVV
Sbjct: 22  IHAGQGSGGAVELRWRLSSRTASDPRRRHHLEGALSPPSSHRCFYAKPRGCRSPDAGSVV 81

Query: 82  ETLPGVXXXXXXXXXXXXXXXXXXXXXXXXXXSRAAAAELVTI 124
           ETLPGV                          SRAAAAELVTI
Sbjct: 82  ETLPGVEGPGEPSRRRSPPRPHRRPEVEGPVRSRAAAAELVTI 124



  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    0.130    0.400 

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: 3,423,939
Number of extensions: 124925
Number of successful extensions: 445
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 444
Number of HSP's successfully gapped: 1
Length of query: 177
Length of database: 17,035,801
Length adjustment: 94
Effective length of query: 83
Effective length of database: 12,127,685
Effective search space: 1006597855
Effective search space used: 1006597855
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: 152 (63.2 bits)