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= Os08g0372900 Os08g0372900|AK102881
         (388 letters)

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

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


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os08g0372900  Similar to Rhodopsin (Fragment)                     681   0.0  

>Os08g0372900 Similar to Rhodopsin (Fragment)
          Length = 388

 Score =  681 bits (1758), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 345/388 (88%), Positives = 345/388 (88%)

Query: 1   MSTTSSSKTATCPLCHADVLLPRRRSAGSSTHRSHDLDDGPAPPSPESSCRSNAAVCGCA 60
           MSTTSSSKTATCPLCHADVLLPRRRSAGSSTHRSHDLDDGPAPPSPESSCRSNAAVCGCA
Sbjct: 1   MSTTSSSKTATCPLCHADVLLPRRRSAGSSTHRSHDLDDGPAPPSPESSCRSNAAVCGCA 60

Query: 61  RCRRPDLISPGTGMRMRNRFGDGPNRISAQSGAWLCRERTAETCXXXXXXXXXXXXLQPA 120
           RCRRPDLISPGTGMRMRNRFGDGPNRISAQSGAWLCRERTAETC            LQPA
Sbjct: 61  RCRRPDLISPGTGMRMRNRFGDGPNRISAQSGAWLCRERTAETCRSTSSRSGRYRRLQPA 120

Query: 121 AVAGTRRAELIKRLQELCHPANNLPNCSASWQPQRQRQKTIDRIPDSLDCGVTMERGKNK 180
           AVAGTRRAELIKRLQELCHPANNLPNCSASWQPQRQRQKTIDRIPDSLDCGVTMERGKNK
Sbjct: 121 AVAGTRRAELIKRLQELCHPANNLPNCSASWQPQRQRQKTIDRIPDSLDCGVTMERGKNK 180

Query: 181 RDGSDNGLIFSNLMHGVAAGIYGYPPHQGYTQAQXXXXXXXXXXXXXXXXXXXXAYPPQP 240
           RDGSDNGLIFSNLMHGVAAGIYGYPPHQGYTQAQ                    AYPPQP
Sbjct: 181 RDGSDNGLIFSNLMHGVAAGIYGYPPHQGYTQAQSYLLLPEAYPPPPWTYPLSSAYPPQP 240

Query: 241 VGYPSGGYPPAVYSDSYLHQGSRVAREQCPLSYSNNAVTCREDGQMNCENGTVNMEKSAM 300
           VGYPSGGYPPAVYSDSYLHQGSRVAREQCPLSYSNNAVTCREDGQMNCENGTVNMEKSAM
Sbjct: 241 VGYPSGGYPPAVYSDSYLHQGSRVAREQCPLSYSNNAVTCREDGQMNCENGTVNMEKSAM 300

Query: 301 SSNKMATSLLKSCGNVMPCRNMERSGPAMYKVDMRGSTKQFSMGSKMMMCLIVFGCLIAA 360
           SSNKMATSLLKSCGNVMPCRNMERSGPAMYKVDMRGSTKQFSMGSKMMMCLIVFGCLIAA
Sbjct: 301 SSNKMATSLLKSCGNVMPCRNMERSGPAMYKVDMRGSTKQFSMGSKMMMCLIVFGCLIAA 360

Query: 361 LDMFRNVAQKQMXXXXXXXXXXXATYVC 388
           LDMFRNVAQKQM           ATYVC
Sbjct: 361 LDMFRNVAQKQMFSVVSLLSFVVATYVC 388



  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
   0.318    0.131    0.409 

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: 13,605,316
Number of extensions: 577310
Number of successful extensions: 1975
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 1966
Number of HSP's successfully gapped: 2
Length of query: 388
Length of database: 17,035,801
Length adjustment: 103
Effective length of query: 285
Effective length of database: 11,657,759
Effective search space: 3322461315
Effective search space used: 3322461315
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 (21.8 bits)
S2: 157 (65.1 bits)