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= Os03g0704000 Os03g0704000|009-025-B02
         (203 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0704000  Similar to 30S ribosomal protein S13, chloropl...   382   e-106

>Os03g0704000 Similar to 30S ribosomal protein S13, chloroplast precursor (CS13)
          Length = 203

 Score =  382 bits (980), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 188/203 (92%), Positives = 188/203 (92%)

Query: 1   MATLSMVSVPIATSSLPLSARGRSSSVSFPVPKKGGIGHGGLRIECIRIGGVEIPNHKRV 60
           MATLSMVSVPIATSSLPLSARGRSSSVSFPVPKKGGIGHGGLRIECIRIGGVEIPNHKRV
Sbjct: 1   MATLSMVSVPIATSSLPLSARGRSSSVSFPVPKKGGIGHGGLRIECIRIGGVEIPNHKRV 60

Query: 61  EYSLQYIHGIGRSRSRQILLDLNFDNKVTKDLSEEEVITLRKEVTKYMIEGDLKRFNRVA 120
           EYSLQYIHGIGRSRSRQILLDLNFDNKVTKDLSEEEVITLRKEVTKYMIEGDLKRFNRVA
Sbjct: 61  EYSLQYIHGIGRSRSRQILLDLNFDNKVTKDLSEEEVITLRKEVTKYMIEGDLKRFNRVA 120

Query: 121 IERLKEIRCYRAASSWTEDEEQLQDAEGKEGFCCEEEVACFPGGIRHIAMYXXXXXXXXX 180
           IERLKEIRCYRAASSWTEDEEQLQDAEGKEGFCCEEEVACFPGGIRHIAMY         
Sbjct: 121 IERLKEIRCYRAASSWTEDEEQLQDAEGKEGFCCEEEVACFPGGIRHIAMYLPLVLCLLF 180

Query: 181 XXXXXXDHALVWYYEILCWCRHR 203
                 DHALVWYYEILCWCRHR
Sbjct: 181 IFCVLLDHALVWYYEILCWCRHR 203



  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    0.138    0.423 

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: 6,696,983
Number of extensions: 274809
Number of successful extensions: 775
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 775
Number of HSP's successfully gapped: 1
Length of query: 203
Length of database: 17,035,801
Length adjustment: 96
Effective length of query: 107
Effective length of database: 12,023,257
Effective search space: 1286488499
Effective search space used: 1286488499
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: 153 (63.5 bits)