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= Os03g0452300 Os03g0452300|AK065820
         (326 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0452300  Ribosomal protein S5, bacterial and chloroplas...   421   e-118

>Os03g0452300 Ribosomal protein S5, bacterial and chloroplast family protein
          Length = 326

 Score =  421 bits (1083), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 226/307 (73%), Positives = 226/307 (73%)

Query: 20  IATAPFSSXXXXXXXXXXXXXFTSRLLLPVPKXXXXXXXXXXXXXXXXXXXXXXXXXXXX 79
           IATAPFSS             FTSRLLLPVPK                            
Sbjct: 20  IATAPFSSLPLRLRLRPKPLLFTSRLLLPVPKSSSWVESVSEEGEEEGVEEDSEESGAAG 79

Query: 80  XXXXXXXNDEKPRPEPVAASGFEFASPPEGYVEPAPFDELPPESPEDVAAAYEALYGPAF 139
                  NDEKPRPEPVAASGFEFASPPEGYVEPAPFDELPPESPEDVAAAYEALYGPAF
Sbjct: 80  EDDDGEDNDEKPRPEPVAASGFEFASPPEGYVEPAPFDELPPESPEDVAAAYEALYGPAF 139

Query: 140 SGETVMGNNVFEVKVVDPVDMDREQRPSDEFSEXXXXXXXXXXXXXGGRQLSFRAIXXXX 199
           SGETVMGNNVFEVKVVDPVDMDREQRPSDEFSE             GGRQLSFRAI    
Sbjct: 140 SGETVMGNNVFEVKVVDPVDMDREQRPSDEFSERVVQVNRVTKVVKGGRQLSFRAIVVVG 199

Query: 200 XXXXXXXXXXXXXXXXTEAITKAAMNGRRNLVTVPLTKYSTFPHRADADYGAARVMLRPA 259
                           TEAITKAAMNGRRNLVTVPLTKYSTFPHRADADYGAARVMLRPA
Sbjct: 200 DMKGHVGVGVGKAKEVTEAITKAAMNGRRNLVTVPLTKYSTFPHRADADYGAARVMLRPA 259

Query: 260 CPGSGVIAGGAVRVVLEMAGVENALGKQLRSKNPLNNARATIKATQMMRQFKDVAAERGL 319
           CPGSGVIAGGAVRVVLEMAGVENALGKQLRSKNPLNNARATIKATQMMRQFKDVAAERGL
Sbjct: 260 CPGSGVIAGGAVRVVLEMAGVENALGKQLRSKNPLNNARATIKATQMMRQFKDVAAERGL 319

Query: 320 PMEQLWK 326
           PMEQLWK
Sbjct: 320 PMEQLWK 326



  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
   0.315    0.132    0.383 

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: 8,515,972
Number of extensions: 354563
Number of successful extensions: 1097
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 1095
Number of HSP's successfully gapped: 1
Length of query: 326
Length of database: 17,035,801
Length adjustment: 101
Effective length of query: 225
Effective length of database: 11,762,187
Effective search space: 2646492075
Effective search space used: 2646492075
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 156 (64.7 bits)