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= Os04g0442100 Os04g0442100|AK067142
         (387 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os04g0442100  Smr protein/MutS2 C-terminal domain containing...   746   0.0  

>Os04g0442100 Smr protein/MutS2 C-terminal domain containing protein
          Length = 387

 Score =  746 bits (1926), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/387 (96%), Positives = 375/387 (96%)

Query: 1   MYRQKIPNSGWAAFDRRWRSKDGRGDDTDVNSFPALSDYIAPSAASSSVAENSRPKAKPF 60
           MYRQKIPNSGWAAFDRRWRSKDGRGDDTDVNSFPALSDYIAPSAASSSVAENSRPKAKPF
Sbjct: 1   MYRQKIPNSGWAAFDRRWRSKDGRGDDTDVNSFPALSDYIAPSAASSSVAENSRPKAKPF 60

Query: 61  ASVLRPSVDCAADGNENGNKHFTCHRENANYGLKSASENKIELLRGAHSWADSNLIEDVL 120
           ASVLRPSVDCAADGNENGNKHFTCHRENANYGLKSASENKIELLRGAHSWADSNLIEDVL
Sbjct: 61  ASVLRPSVDCAADGNENGNKHFTCHRENANYGLKSASENKIELLRGAHSWADSNLIEDVL 120

Query: 121 ASVNNDVGEASALLKAMASPCFPIREDGLPDQLSSEINKTHGLPSGNGTAENNLVNDSQL 180
           ASVNNDVGEASALLKAMASPCFPIREDGLPDQLSSEINKTHGLPSGNGTAENNLVNDSQL
Sbjct: 121 ASVNNDVGEASALLKAMASPCFPIREDGLPDQLSSEINKTHGLPSGNGTAENNLVNDSQL 180

Query: 181 LPLPMNMSSVPIEPEVEELDDDYFNHRKDALKIMRAATKHSQAASNAFLRGDHAAAKELS 240
           LPLPMNMSSVPIEPEVEELDDDYFNHRKDALKIMRAATKHSQAASNAFLRGDHAAAKELS
Sbjct: 181 LPLPMNMSSVPIEPEVEELDDDYFNHRKDALKIMRAATKHSQAASNAFLRGDHAAAKELS 240

Query: 241 LRAQEERSXXXXXXXXXXXXIFRLRNSNNSIWKLDMHGLHASEAVEVLERHLHRIEFQPP 300
           LRAQEERS            IFRLRNSNNSIWKLDMHGLHASEAVEVLERHLHRIEFQPP
Sbjct: 241 LRAQEERSAAEELNKKAAKEIFRLRNSNNSIWKLDMHGLHASEAVEVLERHLHRIEFQPP 300

Query: 301 GNNAASSDEVARSEPRVSGPSIEPGPGKVVFVRPIQAILEVITGIGKHSKGQASLPVAVR 360
           GNNAASSDEVARSEPRVSGPSIEPGPGKVVFVRPIQAILEVITGIGKHSKGQASLPVAVR
Sbjct: 301 GNNAASSDEVARSEPRVSGPSIEPGPGKVVFVRPIQAILEVITGIGKHSKGQASLPVAVR 360

Query: 361 GFLIENGYRFDELRPGVFSVRPKFRRR 387
           GFLIENGYRFDELRPGVFSVRPKFRRR
Sbjct: 361 GFLIENGYRFDELRPGVFSVRPKFRRR 387



  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    0.131    0.381 

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: 13,752,001
Number of extensions: 588115
Number of successful extensions: 1296
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 1301
Number of HSP's successfully gapped: 1
Length of query: 387
Length of database: 17,035,801
Length adjustment: 103
Effective length of query: 284
Effective length of database: 11,657,759
Effective search space: 3310803556
Effective search space used: 3310803556
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 (22.0 bits)
S2: 157 (65.1 bits)