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= Os03g0843400 Os03g0843400|AK061198
         (219 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0843400  Similar to 30S ribosomal protein S6, chloropla...   244   5e-65

>Os03g0843400 Similar to 30S ribosomal protein S6, chloroplast precursor
           (Fragment)
          Length = 219

 Score =  244 bits (622), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 118/118 (100%), Positives = 118/118 (100%)

Query: 102 REMPPCPPGLRQYETMVVLRPDMSEEERLALIQRYEELLVAGGAMYVEVFNRGVIPLAYS 161
           REMPPCPPGLRQYETMVVLRPDMSEEERLALIQRYEELLVAGGAMYVEVFNRGVIPLAYS
Sbjct: 102 REMPPCPPGLRQYETMVVLRPDMSEEERLALIQRYEELLVAGGAMYVEVFNRGVIPLAYS 161

Query: 162 IRKRNSRTGLPSTYYDGIYLLVTYFTKPESLDALQMRLNADDDVIRSTSFKVRKRKAF 219
           IRKRNSRTGLPSTYYDGIYLLVTYFTKPESLDALQMRLNADDDVIRSTSFKVRKRKAF
Sbjct: 162 IRKRNSRTGLPSTYYDGIYLLVTYFTKPESLDALQMRLNADDDVIRSTSFKVRKRKAF 219



  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    0.139    0.405 

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: 4,876,792
Number of extensions: 163016
Number of successful extensions: 336
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 336
Number of HSP's successfully gapped: 1
Length of query: 219
Length of database: 17,035,801
Length adjustment: 97
Effective length of query: 122
Effective length of database: 11,971,043
Effective search space: 1460467246
Effective search space used: 1460467246
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: 154 (63.9 bits)