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= Os03g0719700 Os03g0719700|AK065707
         (103 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0719700  Similar to Phytochrome A                            190   2e-49

>Os03g0719700 Similar to Phytochrome A
          Length = 103

 Score =  190 bits (482), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 91/91 (100%), Positives = 91/91 (100%)

Query: 1  MPPGQFRHGSIPLRAPSKFVSTKYGRNKRAWIVNNCFVVSLNPSKFVHDQLMNSHILCNK 60
          MPPGQFRHGSIPLRAPSKFVSTKYGRNKRAWIVNNCFVVSLNPSKFVHDQLMNSHILCNK
Sbjct: 1  MPPGQFRHGSIPLRAPSKFVSTKYGRNKRAWIVNNCFVVSLNPSKFVHDQLMNSHILCNK 60

Query: 61 AHTNNMVVKVPAGTGIHNQDNRAIISLGAMS 91
          AHTNNMVVKVPAGTGIHNQDNRAIISLGAMS
Sbjct: 61 AHTNNMVVKVPAGTGIHNQDNRAIISLGAMS 91



  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
   0.321    0.133    0.414 

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: 3,485,886
Number of extensions: 120999
Number of successful extensions: 161
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 161
Number of HSP's successfully gapped: 1
Length of query: 103
Length of database: 17,035,801
Length adjustment: 71
Effective length of query: 32
Effective length of database: 13,328,607
Effective search space: 426515424
Effective search space used: 426515424
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 (21.9 bits)
S2: 149 (62.0 bits)