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= Os05g0560000 Os05g0560000|AK061603
         (142 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os05g0560000  Photosystem I reaction center subunit VI, chlo...   224   1e-59
AK106032                                                          224   1e-59

>Os05g0560000 Photosystem I reaction center subunit VI, chloroplast precursor
           (PSI- H) (Light-harvesting complex I 11 kDa protein)
           (GOS5 protein)
          Length = 142

 Score =  224 bits (572), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 116/142 (81%), Positives = 116/142 (81%)

Query: 1   MASLVAVQPVAVKGLAGSSISGRKLAVRPSPRALCXXXXXXXXXXXXKYGEKSVYFDLED 60
           MASLVAVQPVAVKGLAGSSISGRKLAVRPSPRALC            KYGEKSVYFDLED
Sbjct: 1   MASLVAVQPVAVKGLAGSSISGRKLAVRPSPRALCRTTRRPRAAVVAKYGEKSVYFDLED 60

Query: 61  IGNTTGQWDLYGSDAPSPYNPLQSKFFETFAGPFTKRXXXXXXXXXXXXXXVAYVSASAS 120
           IGNTTGQWDLYGSDAPSPYNPLQSKFFETFAGPFTKR              VAYVSASAS
Sbjct: 61  IGNTTGQWDLYGSDAPSPYNPLQSKFFETFAGPFTKRGLLLKFLLLGGGSLVAYVSASAS 120

Query: 121 PDLLPIKKGPQLPPTPGPRGKI 142
           PDLLPIKKGPQLPPTPGPRGKI
Sbjct: 121 PDLLPIKKGPQLPPTPGPRGKI 142



>AK106032 
          Length = 142

 Score =  224 bits (572), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 116/142 (81%), Positives = 116/142 (81%)

Query: 1   MASLVAVQPVAVKGLAGSSISGRKLAVRPSPRALCXXXXXXXXXXXXKYGEKSVYFDLED 60
           MASLVAVQPVAVKGLAGSSISGRKLAVRPSPRALC            KYGEKSVYFDLED
Sbjct: 1   MASLVAVQPVAVKGLAGSSISGRKLAVRPSPRALCRTTRRPRAAVVAKYGEKSVYFDLED 60

Query: 61  IGNTTGQWDLYGSDAPSPYNPLQSKFFETFAGPFTKRXXXXXXXXXXXXXXVAYVSASAS 120
           IGNTTGQWDLYGSDAPSPYNPLQSKFFETFAGPFTKR              VAYVSASAS
Sbjct: 61  IGNTTGQWDLYGSDAPSPYNPLQSKFFETFAGPFTKRGLLLKFLLLGGGSLVAYVSASAS 120

Query: 121 PDLLPIKKGPQLPPTPGPRGKI 142
           PDLLPIKKGPQLPPTPGPRGKI
Sbjct: 121 PDLLPIKKGPQLPPTPGPRGKI 142



  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    0.135    0.406 

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: 4,647,739
Number of extensions: 150844
Number of successful extensions: 308
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 308
Number of HSP's successfully gapped: 2
Length of query: 142
Length of database: 17,035,801
Length adjustment: 91
Effective length of query: 51
Effective length of database: 12,284,327
Effective search space: 626500677
Effective search space used: 626500677
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: 42 (22.0 bits)
S2: 151 (62.8 bits)