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= Os08g0416400 Os08g0416400|AK064144
         (503 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os08g0416400  RNA-binding region RNP-1 (RNA recognition moti...   513   e-145

>Os08g0416400 RNA-binding region RNP-1 (RNA recognition motif) domain containing
           protein
          Length = 503

 Score =  513 bits (1321), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 280/432 (64%), Positives = 280/432 (64%)

Query: 72  HSFAPSFRPLGAXXXXXXXXXXXXXXXXXXXXXXXXXXXMAQQMQPPGVPHVMPPGAVRP 131
           HSFAPSFRPLGA                           MAQQMQPPGVPHVMPPGAVRP
Sbjct: 72  HSFAPSFRPLGAPPPPPPPQQVQVQVPPQYGGVPNPGYPMAQQMQPPGVPHVMPPGAVRP 131

Query: 132 PAMYAPQPGVYLQQPGAALXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLQXXXXXXXXX 191
           PAMYAPQPGVYLQQPGAAL                              LQ         
Sbjct: 132 PAMYAPQPGVYLQQPGAALPPGMPRYPGPYPMMRPGFPPRPMPPVGVMPLQRPPIIPGIR 191

Query: 192 XXXXXXXXXXXXXXXXXXXXXXXXXXXYVGKIAPTVDNEFLLSLLRLCGPVKSWKRTQNP 251
                                      YVGKIAPTVDNEFLLSLLRLCGPVKSWKRTQNP
Sbjct: 192 GAPPVVPPTARPPTPAVTPPDKPPTAVYVGKIAPTVDNEFLLSLLRLCGPVKSWKRTQNP 251

Query: 252 SSGKPVSFGFCEFESAEGILRATRLLNKLSIDGQELVVNINDATKEYLKKHVXXXXXXXX 311
           SSGKPVSFGFCEFESAEGILRATRLLNKLSIDGQELVVNINDATKEYLKKHV        
Sbjct: 252 SSGKPVSFGFCEFESAEGILRATRLLNKLSIDGQELVVNINDATKEYLKKHVEEKKKAQE 311

Query: 312 XXXXXXDGGGSGTTAVTGNELSKPVSDETETGTGDAGDKGNEENPKKFGIVTEEDSKADK 371
                 DGGGSGTTAVTGNELSKPVSDETETGTGDAGDKGNEENPKKFGIVTEEDSKADK
Sbjct: 312 KTKEMEDGGGSGTTAVTGNELSKPVSDETETGTGDAGDKGNEENPKKFGIVTEEDSKADK 371

Query: 372 DVAEKISSMIEEWLKTRXXXXXXXVEQSADISSKHKNGEYSVDVTKNDSEDKSGTGSDKR 431
           DVAEKISSMIEEWLKTR       VEQSADISSKHKNGEYSVDVTKNDSEDKSGTGSDKR
Sbjct: 372 DVAEKISSMIEEWLKTRPPPPPPPVEQSADISSKHKNGEYSVDVTKNDSEDKSGTGSDKR 431

Query: 432 AVNETERIETGSPXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIKYKEVERL 491
           AVNETERIETGSP                                      IKYKEVERL
Sbjct: 432 AVNETERIETGSPDKRKERERDKEKRDKDKELERHERERERERVRRDREKDIKYKEVERL 491

Query: 492 YKERLKEWEFRE 503
           YKERLKEWEFRE
Sbjct: 492 YKERLKEWEFRE 503



  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
   0.309    0.130    0.372 

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: 10,781,793
Number of extensions: 402264
Number of successful extensions: 1578
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 1576
Number of HSP's successfully gapped: 2
Length of query: 503
Length of database: 17,035,801
Length adjustment: 105
Effective length of query: 398
Effective length of database: 11,553,331
Effective search space: 4598225738
Effective search space used: 4598225738
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 158 (65.5 bits)