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= Os07g0621600 Os07g0621600|J065117P04
         (55 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os07g0621600  Cytochrome oxidase c, subunit VIb family protein    117   2e-27
Os03g0390400  Similar to Cytochrome c oxidase subunit 6b           67   2e-12
Os04g0498200  Similar to Cytochrome c oxidase subunit 6b           65   1e-11

>Os07g0621600 Cytochrome oxidase c, subunit VIb family protein
          Length = 55

 Score =  117 bits (292), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 55/55 (100%), Positives = 55/55 (100%)

Query: 1  VLTIYNIQIETAPADFRFPTTNQTRHCFTRYIEYHRYEYDRDLSVSDSSYLKPWC 55
          VLTIYNIQIETAPADFRFPTTNQTRHCFTRYIEYHRYEYDRDLSVSDSSYLKPWC
Sbjct: 1  VLTIYNIQIETAPADFRFPTTNQTRHCFTRYIEYHRYEYDRDLSVSDSSYLKPWC 55



>Os03g0390400 Similar to Cytochrome c oxidase subunit 6b
          Length = 169

 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/30 (93%), Positives = 30/30 (100%)

Query: 7   IQIETAPADFRFPTTNQTRHCFTRYIEYHR 36
           I+IETAPADFRFPTTNQTRHCFTRY+EYHR
Sbjct: 96  IKIETAPADFRFPTTNQTRHCFTRYVEYHR 125



>Os04g0498200 Similar to Cytochrome c oxidase subunit 6b
          Length = 117

 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/44 (65%), Positives = 35/44 (79%)

Query: 4  IYNIQIETAPADFRFPTTNQTRHCFTRYIEYHRYEYDRDLSVSD 47
          +  I+I+TAPADFRFPTTNQTRHCFTRYIEYHR    +  + +D
Sbjct: 41 MAEIEIKTAPADFRFPTTNQTRHCFTRYIEYHRCVNAKGEATAD 84



  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
   0.325    0.137    0.452 

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: 1,823,940
Number of extensions: 53135
Number of successful extensions: 148
Number of sequences better than 1.0e-10: 3
Number of HSP's gapped: 148
Number of HSP's successfully gapped: 3
Length of query: 55
Length of database: 17,035,801
Length adjustment: 28
Effective length of query: 27
Effective length of database: 15,573,809
Effective search space: 420492843
Effective search space used: 420492843
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 149 (62.0 bits)