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= Os11g0615100 Os11g0615100|AK069228
         (484 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os11g0615100  A49-like RNA polymerase I associated factor fa...   839   0.0  

>Os11g0615100 A49-like RNA polymerase I associated factor family protein
          Length = 484

 Score =  839 bits (2167), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 417/484 (86%), Positives = 417/484 (86%)

Query: 1   MADHQXXXXXXXXXXXXXXXXEDSNATVDDXXXXXXXXXXXXXXXXXXXXREAIDATMAA 60
           MADHQ                EDSNATVDD                    REAIDATMAA
Sbjct: 1   MADHQPAASSPKRKKKHSKKPEDSNATVDDSLAAAASPSPKKKEKHSKKKREAIDATMAA 60

Query: 61  ASPXXXXXXXXXXQEDTNVPEKKREVVHVTVDASLTXXXXXXXXXXXXYFPTGYDPLAAG 120
           ASP          QEDTNVPEKKREVVHVTVDASLT            YFPTGYDPLAAG
Sbjct: 61  ASPKKKEKKHSKKQEDTNVPEKKREVVHVTVDASLTGAAAAGAAPVVAYFPTGYDPLAAG 120

Query: 121 GGRKGREAPRTRLFRHTKHPSRIELVVXXXXXXXXXPDFVGRSYAGEAVLPQLTGYALGV 180
           GGRKGREAPRTRLFRHTKHPSRIELVV         PDFVGRSYAGEAVLPQLTGYALGV
Sbjct: 121 GGRKGREAPRTRLFRHTKHPSRIELVVGAATGGGGGPDFVGRSYAGEAVLPQLTGYALGV 180

Query: 181 LDKASGTLKVVPIAANKKLAHSQHSGAVGEAVSSAGDADLKVQDITKAFGTQKDKAKDIK 240
           LDKASGTLKVVPIAANKKLAHSQHSGAVGEAVSSAGDADLKVQDITKAFGTQKDKAKDIK
Sbjct: 181 LDKASGTLKVVPIAANKKLAHSQHSGAVGEAVSSAGDADLKVQDITKAFGTQKDKAKDIK 240

Query: 241 WQSLNEQRNDPSAFMDLDLGNADTSVGANESQEPTVRNIPPYDPAADTSERAYLFDEIIP 300
           WQSLNEQRNDPSAFMDLDLGNADTSVGANESQEPTVRNIPPYDPAADTSERAYLFDEIIP
Sbjct: 241 WQSLNEQRNDPSAFMDLDLGNADTSVGANESQEPTVRNIPPYDPAADTSERAYLFDEIIP 300

Query: 301 KSIRPHLVDIIGHFESGEISSKGYGSFVSNRVNKLQELQGEDKERLAWILSYITHLLSLL 360
           KSIRPHLVDIIGHFESGEISSKGYGSFVSNRVNKLQELQGEDKERLAWILSYITHLLSLL
Sbjct: 301 KSIRPHLVDIIGHFESGEISSKGYGSFVSNRVNKLQELQGEDKERLAWILSYITHLLSLL 360

Query: 361 ARNSSMSKRHRKENQATSGPVIPQYVYRKMVLMFTEPGSSALSTEKHELLINYILVLTLY 420
           ARNSSMSKRHRKENQATSGPVIPQYVYRKMVLMFTEPGSSALSTEKHELLINYILVLTLY
Sbjct: 361 ARNSSMSKRHRKENQATSGPVIPQYVYRKMVLMFTEPGSSALSTEKHELLINYILVLTLY 420

Query: 421 ADDFRSDPKDICEDLKMTRQMIKPYYDQLGCKSSSAGAFKSSVMTLPAPLKFPKEATRRK 480
           ADDFRSDPKDICEDLKMTRQMIKPYYDQLGCKSSSAGAFKSSVMTLPAPLKFPKEATRRK
Sbjct: 421 ADDFRSDPKDICEDLKMTRQMIKPYYDQLGCKSSSAGAFKSSVMTLPAPLKFPKEATRRK 480

Query: 481 RRRF 484
           RRRF
Sbjct: 481 RRRF 484



  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    0.372 

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: 14,158,450
Number of extensions: 550612
Number of successful extensions: 1091
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 1090
Number of HSP's successfully gapped: 1
Length of query: 484
Length of database: 17,035,801
Length adjustment: 105
Effective length of query: 379
Effective length of database: 11,553,331
Effective search space: 4378712449
Effective search space used: 4378712449
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: 42 (22.0 bits)
S2: 158 (65.5 bits)