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= Os03g0311600 Os03g0311600|AK103709
         (205 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0311600  Helix-loop-helix DNA-binding domain containing...   231   4e-61
Os07g0688600                                                       96   2e-20

>Os03g0311600 Helix-loop-helix DNA-binding domain containing protein
          Length = 205

 Score =  231 bits (588), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 130/189 (68%), Positives = 130/189 (68%)

Query: 1   MASTSGSAAAVEERGNSERKRKRGATGESEGSEAQPSKWRTRRAHEIYSSKLLDAIRLVX 60
           MASTSGSAAAVEERGNSERKRKRGATGESEGSEAQPSKWRTRRAHEIYSSKLLDAIRLV 
Sbjct: 1   MASTSGSAAAVEERGNSERKRKRGATGESEGSEAQPSKWRTRRAHEIYSSKLLDAIRLVR 60

Query: 61  XXXXXXXXXXXXXXXXXXXXXDRALAVSARGRTRWSRAILXXXXXXXXXXXXXXXXXXIX 120
                                DRALAVSARGRTRWSRAIL                  I 
Sbjct: 61  SGSPSSSAAAPPRSRAVREAADRALAVSARGRTRWSRAILASHRRRIQAARRARLREAIS 120

Query: 121 XXXXXXXXXXXXXXXXXXLARKAKVLGRLVPGCRKLPFPALLAEASDYIAALEMQVRAMT 180
                             LARKAKVLGRLVPGCRKLPFPALLAEASDYIAALEMQVRAMT
Sbjct: 121 PPSRHPSSSSGKGPKAPALARKAKVLGRLVPGCRKLPFPALLAEASDYIAALEMQVRAMT 180

Query: 181 ALAEVLSTV 189
           ALAEVLSTV
Sbjct: 181 ALAEVLSTV 189



>Os07g0688600 
          Length = 177

 Score = 95.9 bits (237), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 69/141 (48%), Positives = 74/141 (52%), Gaps = 9/141 (6%)

Query: 37  SKWRTRRAHEIYSSKLLDAIRLVXXXXXXXXXXXXXXXXXXXXXXDRALAVSARGRTRWS 96
           ++WRTRR  E YSSKLLDA+RLV                        ALAV+ARGR+RWS
Sbjct: 23  ARWRTRREQESYSSKLLDALRLVRAASGRPSPASSREVRHAADR---ALAVAARGRSRWS 79

Query: 97  RAILXXXXXXXXXXXXXXXXXXIXXXXXXXXXXXXXXXXXXXLARKAKVLGRLVPGCRKL 156
           RAIL                                      LA KAKVLGRLVPGCRKL
Sbjct: 80  RAILASRARACALRRVRLGAPPPPPAARPAPRSRPP------LASKAKVLGRLVPGCRKL 133

Query: 157 PFPALLAEASDYIAALEMQVR 177
            FPALLAEASDYIAALEMQVR
Sbjct: 134 AFPALLAEASDYIAALEMQVR 154



  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
   0.316    0.127    0.349 

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: 3,865,251
Number of extensions: 102355
Number of successful extensions: 829
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 828
Number of HSP's successfully gapped: 2
Length of query: 205
Length of database: 17,035,801
Length adjustment: 96
Effective length of query: 109
Effective length of database: 12,023,257
Effective search space: 1310535013
Effective search space used: 1310535013
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: 153 (63.5 bits)