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= Os01g0205300 Os01g0205300|Os01g0205300
         (136 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os01g0205300  Rho termination factor, N-terminal domain cont...   207   1e-54

>Os01g0205300 Rho termination factor, N-terminal domain containing protein
          Length = 136

 Score =  207 bits (528), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 107/136 (78%), Positives = 107/136 (78%)

Query: 1   MGFCFVLHGIASHAHRWGASGQKQMDLRCQERLIGVXXXXXXXXXXXXXXXXXXNRQELR 60
           MGFCFVLHGIASHAHRWGASGQKQMDLRCQERLIGV                  NRQELR
Sbjct: 1   MGFCFVLHGIASHAHRWGASGQKQMDLRCQERLIGVAKKSSLSSSKASRPPLPRNRQELR 60

Query: 61  GGRGSNHLTRSKRLRGGSSHTLGIADVSEEHADGEPKALDLNDMKVXXXXXXXXXXXMKG 120
           GGRGSNHLTRSKRLRGGSSHTLGIADVSEEHADGEPKALDLNDMKV           MKG
Sbjct: 61  GGRGSNHLTRSKRLRGGSSHTLGIADVSEEHADGEPKALDLNDMKVAELRELARARRMKG 120

Query: 121 YSRLKKSELIDRLKGV 136
           YSRLKKSELIDRLKGV
Sbjct: 121 YSRLKKSELIDRLKGV 136



  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
   0.319    0.136    0.404 

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: 3,871,325
Number of extensions: 117423
Number of successful extensions: 192
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 191
Number of HSP's successfully gapped: 1
Length of query: 136
Length of database: 17,035,801
Length adjustment: 90
Effective length of query: 46
Effective length of database: 12,336,541
Effective search space: 567480886
Effective search space used: 567480886
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 150 (62.4 bits)