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= Os03g0125000 Os03g0125000|AK070779
         (279 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os03g0125000  Similar to 50S ribosomal protein L5, chloroplast    474   e-134

>Os03g0125000 Similar to 50S ribosomal protein L5, chloroplast
          Length = 279

 Score =  474 bits (1219), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 237/279 (84%), Positives = 237/279 (84%)

Query: 1   MAATAVTLPSSPAPFPVTTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 60
           MAATAVTLPSSPAPFPVTTT                                        
Sbjct: 1   MAATAVTLPSSPAPFPVTTTASSSRNVRLLLRSPPPRRALRVAASAAADAPPKPAPPPTS 60

Query: 61  XXGIVLVDPTEAQKVHRLKAVYDQKVVPLITEEFGYTNVHQVPKVEKIVVNCGLGAEAGN 120
             GIVLVDPTEAQKVHRLKAVYDQKVVPLITEEFGYTNVHQVPKVEKIVVNCGLGAEAGN
Sbjct: 61  PSGIVLVDPTEAQKVHRLKAVYDQKVVPLITEEFGYTNVHQVPKVEKIVVNCGLGAEAGN 120

Query: 121 SKGLESAMKDLAMITGQWPVKTKAKKSVASFKIREGNTIGIAVTLRGRVMFNFLDRLINL 180
           SKGLESAMKDLAMITGQWPVKTKAKKSVASFKIREGNTIGIAVTLRGRVMFNFLDRLINL
Sbjct: 121 SKGLESAMKDLAMITGQWPVKTKAKKSVASFKIREGNTIGIAVTLRGRVMFNFLDRLINL 180

Query: 181 GLPRTMDFLGVNPNSFDGHGNFTIGLRDQGVFPEIPYEVGGKKNGMDVCIVTTAKTDNEA 240
           GLPRTMDFLGVNPNSFDGHGNFTIGLRDQGVFPEIPYEVGGKKNGMDVCIVTTAKTDNEA
Sbjct: 181 GLPRTMDFLGVNPNSFDGHGNFTIGLRDQGVFPEIPYEVGGKKNGMDVCIVTTAKTDNEA 240

Query: 241 LRLLTLLGMPFAEHIKSSVVIRKKRLKRHHFMSKGRGRR 279
           LRLLTLLGMPFAEHIKSSVVIRKKRLKRHHFMSKGRGRR
Sbjct: 241 LRLLTLLGMPFAEHIKSSVVIRKKRLKRHHFMSKGRGRR 279



  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
   0.320    0.137    0.399 

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: 7,785,851
Number of extensions: 290419
Number of successful extensions: 613
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 613
Number of HSP's successfully gapped: 1
Length of query: 279
Length of database: 17,035,801
Length adjustment: 100
Effective length of query: 179
Effective length of database: 11,814,401
Effective search space: 2114777779
Effective search space used: 2114777779
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 (21.8 bits)
S2: 155 (64.3 bits)