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= Os03g0856500 Os03g0856500|AK061449
         (309 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0856500  Similar to Plastid-specific 30S ribosomal prot...   463   e-131

>Os03g0856500 Similar to Plastid-specific 30S ribosomal protein 1, chloroplast
           precursor (CS- S5) (CS5) (S22) (Ribosomal protein 1)
           (PSRP-1)
          Length = 309

 Score =  463 bits (1192), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 230/270 (85%), Positives = 230/270 (85%)

Query: 40  RSGFLGRXXXXXXXXXXXXXXXXXXXXXXXXXXXWDGPLSSVRLIMQGRNVKLNEKVKEH 99
           RSGFLGR                           WDGPLSSVRLIMQGRNVKLNEKVKEH
Sbjct: 40  RSGFLGRALPAAAHPQPLLAAESRRSSAVSVRMSWDGPLSSVRLIMQGRNVKLNEKVKEH 99

Query: 100 IEEKAGRAVAKHSQLVKEVDVRLSARGGELSRGPKICRCEITLFTKRHGVIRAEEDAEST 159
           IEEKAGRAVAKHSQLVKEVDVRLSARGGELSRGPKICRCEITLFTKRHGVIRAEEDAEST
Sbjct: 100 IEEKAGRAVAKHSQLVKEVDVRLSARGGELSRGPKICRCEITLFTKRHGVIRAEEDAEST 159

Query: 160 YASIDLASSXXXXXXXXXXXXXTDVRHLKGTKPPVSDWPPSLLDNNDDDAQAQLKDLEEA 219
           YASIDLASS             TDVRHLKGTKPPVSDWPPSLLDNNDDDAQAQLKDLEEA
Sbjct: 160 YASIDLASSIIKRKLRKIKEKETDVRHLKGTKPPVSDWPPSLLDNNDDDAQAQLKDLEEA 219

Query: 220 VGAEDEDTVLTKVVRTKVFEMPPLSVEEAMEQLVNVDHNFYAFRDEKTGEMNVLYKRKEG 279
           VGAEDEDTVLTKVVRTKVFEMPPLSVEEAMEQLVNVDHNFYAFRDEKTGEMNVLYKRKEG
Sbjct: 220 VGAEDEDTVLTKVVRTKVFEMPPLSVEEAMEQLVNVDHNFYAFRDEKTGEMNVLYKRKEG 279

Query: 280 GFGLIVPKGDGHLHKETIPNSDHHHPSLAA 309
           GFGLIVPKGDGHLHKETIPNSDHHHPSLAA
Sbjct: 280 GFGLIVPKGDGHLHKETIPNSDHHHPSLAA 309



  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
   0.314    0.132    0.382 

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: 8,256,888
Number of extensions: 311664
Number of successful extensions: 664
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 664
Number of HSP's successfully gapped: 1
Length of query: 309
Length of database: 17,035,801
Length adjustment: 101
Effective length of query: 208
Effective length of database: 11,762,187
Effective search space: 2446534896
Effective search space used: 2446534896
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 156 (64.7 bits)