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= Os05g0126800 Os05g0126800|Os05g0126800
         (141 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os05g0126800  Mss4-like domain containing protein                 170   2e-43

>Os05g0126800 Mss4-like domain containing protein
          Length = 141

 Score =  170 bits (431), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 93/141 (65%), Positives = 93/141 (65%)

Query: 1   MAMKKPDQPALDLPSSLSTVSYCCGACGYDLKLSSSARDTXXXXXXXXXXXXXXXXXXXX 60
           MAMKKPDQPALDLPSSLSTVSYCCGACGYDLKLSSSARDT                    
Sbjct: 1   MAMKKPDQPALDLPSSLSTVSYCCGACGYDLKLSSSARDTAGMVVAGGGGGYRRRRGVVR 60

Query: 61  XXXIDDARFGHVDEFRCVDVXXXXXXXXXXXXXXXKCGAHVGFAYDDRAARXXXXXXXXX 120
              IDDARFGHVDEFRCVDV               KCGAHVGFAYDDRAAR         
Sbjct: 61  FGAIDDARFGHVDEFRCVDVRARRLFTRRTRLLCRKCGAHVGFAYDDRAARSPPSSSPPP 120

Query: 121 XRYDIKIRALHPIEAPQPSDL 141
            RYDIKIRALHPIEAPQPSDL
Sbjct: 121 PRYDIKIRALHPIEAPQPSDL 141



  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
   0.322    0.137    0.432 

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: 3,316,037
Number of extensions: 71980
Number of successful extensions: 114
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 114
Number of HSP's successfully gapped: 1
Length of query: 141
Length of database: 17,035,801
Length adjustment: 91
Effective length of query: 50
Effective length of database: 12,284,327
Effective search space: 614216350
Effective search space used: 614216350
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: 151 (62.8 bits)