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= Os02g0557500 Os02g0557500|AK112106
         (401 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os02g0557500  U2 auxiliary factor small subunit family protein    575   e-164

>Os02g0557500 U2 auxiliary factor small subunit family protein
          Length = 401

 Score =  575 bits (1481), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 290/360 (80%), Positives = 290/360 (80%)

Query: 1   MNGRYFAGKQITCEFVAVTRWKVAICGEYMRSRFKTCSRGIACNFIHCFRNPGGDYEWAD 60
           MNGRYFAGKQITCEFVAVTRWKVAICGEYMRSRFKTCSRGIACNFIHCFRNPGGDYEWAD
Sbjct: 1   MNGRYFAGKQITCEFVAVTRWKVAICGEYMRSRFKTCSRGIACNFIHCFRNPGGDYEWAD 60

Query: 61  WDNPPPRYWIRKMAALFGPSDDSIYGKPSDTPHLEXXXXXXXXXXXXXXXXXXXXXXXDE 120
           WDNPPPRYWIRKMAALFGPSDDSIYGKPSDTPHLE                       DE
Sbjct: 61  WDNPPPRYWIRKMAALFGPSDDSIYGKPSDTPHLERSQSSDRRRPRSSDPRYTPSRTRDE 120

Query: 121 DAHKQHSSRDYSHSKHERSSHTEHRRDRKESSASDKHRHREIKDKTSKYSSNMESERESH 180
           DAHKQHSSRDYSHSKHERSSHTEHRRDRKESSASDKHRHREIKDKTSKYSSNMESERESH
Sbjct: 121 DAHKQHSSRDYSHSKHERSSHTEHRRDRKESSASDKHRHREIKDKTSKYSSNMESERESH 180

Query: 181 KYMREEKHRIXXXXXXXXXXXXVRSRKNRSERQESLEPGSSGRSSDFIDQDTTESPSGSK 240
           KYMREEKHRI            VRSRKNRSERQESLEPGSSGRSSDFIDQDTTESPSGSK
Sbjct: 181 KYMREEKHRIDHGNGGKGDHGKVRSRKNRSERQESLEPGSSGRSSDFIDQDTTESPSGSK 240

Query: 241 STGRHHKKTRRQXXXXXXXXXXXXXXDMEDDGRGQSVAVKRKDHHDTSDDRWVATNSDVD 300
           STGRHHKKTRRQ              DMEDDGRGQSVAVKRKDHHDTSDDRWVATNSDVD
Sbjct: 241 STGRHHKKTRRQSLEEHSTRRSSRHRDMEDDGRGQSVAVKRKDHHDTSDDRWVATNSDVD 300

Query: 301 SDLETQYQRSSSEGSKLGMKYHARSDXXXXXXXXXXXXXXXXXXXXXQSGNGERSDTLEV 360
           SDLETQYQRSSSEGSKLGMKYHARSD                     QSGNGERSDTLEV
Sbjct: 301 SDLETQYQRSSSEGSKLGMKYHARSDSETGYGRSRSGTTKSRRERKRQSGNGERSDTLEV 360



  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
   0.311    0.126    0.379 

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: 11,434,101
Number of extensions: 440565
Number of successful extensions: 1363
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 1357
Number of HSP's successfully gapped: 1
Length of query: 401
Length of database: 17,035,801
Length adjustment: 103
Effective length of query: 298
Effective length of database: 11,657,759
Effective search space: 3474012182
Effective search space used: 3474012182
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 (21.8 bits)
S2: 157 (65.1 bits)