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= Os12g0143300 Os12g0143300|J065138F13
         (112 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os12g0143300  Excinuclease ABC, C subunit, N-terminal domain...   202   6e-53
Os11g0146550  Excinuclease ABC, C subunit, N-terminal domain...   165   5e-42

>Os12g0143300 Excinuclease ABC, C subunit, N-terminal domain containing protein
          Length = 112

 Score =  202 bits (513), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 101/112 (90%), Positives = 101/112 (90%)

Query: 1   MNLSATFRSAKIPRALPPKSGEPXXXXXXXXXXXPGNPSAEAAKGKAALGWCVYLIASSR 60
           MNLSATFRSAKIPRALPPKSGEP           PGNPSAEAAKGKAALGWCVYLIASSR
Sbjct: 1   MNLSATFRSAKIPRALPPKSGEPAAAALASASCAPGNPSAEAAKGKAALGWCVYLIASSR 60

Query: 61  ISRTYVGVTTDFPRRLRQHNGELKGGAKASSAGRPWNLACLIEGFVNRSEGY 112
           ISRTYVGVTTDFPRRLRQHNGELKGGAKASSAGRPWNLACLIEGFVNRSEGY
Sbjct: 61  ISRTYVGVTTDFPRRLRQHNGELKGGAKASSAGRPWNLACLIEGFVNRSEGY 112



>Os11g0146550 Excinuclease ABC, C subunit, N-terminal domain containing protein
          Length = 125

 Score =  165 bits (418), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 93/113 (82%), Positives = 93/113 (82%), Gaps = 1/113 (0%)

Query: 1   MNLSATFRSAKIPRALPPKSGEPXXXXXXXXXXXPGNPS-AEAAKGKAALGWCVYLIASS 59
           M LSATFRSAKIPRALPPKSGEP               S AEAAKGKAA GWCVYLIASS
Sbjct: 1   MKLSATFRSAKIPRALPPKSGEPAAAAAAASASCAPGSSPAEAAKGKAASGWCVYLIASS 60

Query: 60  RISRTYVGVTTDFPRRLRQHNGELKGGAKASSAGRPWNLACLIEGFVNRSEGY 112
           RI RTYVGVTTDFPRRLRQHNGELKGGAKASSAGRPWNLACLIEGFVNRSE Y
Sbjct: 61  RIPRTYVGVTTDFPRRLRQHNGELKGGAKASSAGRPWNLACLIEGFVNRSEDY 113



  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
   0.316    0.132    0.407 

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: 3,603,835
Number of extensions: 127298
Number of successful extensions: 293
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 292
Number of HSP's successfully gapped: 2
Length of query: 112
Length of database: 17,035,801
Length adjustment: 79
Effective length of query: 33
Effective length of database: 12,910,895
Effective search space: 426059535
Effective search space used: 426059535
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: 149 (62.0 bits)