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= Os02g0116900 Os02g0116900|AK121401
         (142 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os02g0116900  Similar to 15.9 kDa subunit of RNA polymerase II    292   4e-80
Os02g0723300  HRDC-like domain containing protein                  79   1e-15

>Os02g0116900 Similar to 15.9 kDa subunit of RNA polymerase II
          Length = 142

 Score =  292 bits (748), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 142/142 (100%), Positives = 142/142 (100%)

Query: 1   MSGEEEENAAELKIGEEFLKAKCLMNCEVAIILEHKYEQIQHMSDGDPSSQVSQVFEKSL 60
           MSGEEEENAAELKIGEEFLKAKCLMNCEVAIILEHKYEQIQHMSDGDPSSQVSQVFEKSL
Sbjct: 1   MSGEEEENAAELKIGEEFLKAKCLMNCEVAIILEHKYEQIQHMSDGDPSSQVSQVFEKSL 60

Query: 61  QYVKRFSRYKNPDAVRQVRETLSRYGLAEFELCTLGNLCPDTSDEASALVPSLRSGGRFV 120
           QYVKRFSRYKNPDAVRQVRETLSRYGLAEFELCTLGNLCPDTSDEASALVPSLRSGGRFV
Sbjct: 61  QYVKRFSRYKNPDAVRQVRETLSRYGLAEFELCTLGNLCPDTSDEASALVPSLRSGGRFV 120

Query: 121 GDPGSEKIDKMLNDLSLIKKFE 142
           GDPGSEKIDKMLNDLSLIKKFE
Sbjct: 121 GDPGSEKIDKMLNDLSLIKKFE 142



>Os02g0723300 HRDC-like domain containing protein
          Length = 128

 Score = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 68/108 (62%), Gaps = 1/108 (0%)

Query: 24  LMNCEVAIILEHKYEQIQHMSDGDPSSQVSQVFEKSLQYVKRFSRYKNPDAVRQVRETLS 83
           LMNCEVA +L+  +E +  +S+ DP  ++ + F+K+ QYVK  +++    +V+QV + L 
Sbjct: 15  LMNCEVAELLQEIHEHMAILSE-DPKIKIPESFDKAFQYVKEGNQFSTAQSVKQVLDPLR 73

Query: 84  RYGLAEFELCTLGNLCPDTSDEASALVPSLRSGGRFVGDPGSEKIDKM 131
           +YG+++ E+C + N+ P+T +E  ALVPSL++       P  E +  +
Sbjct: 74  KYGVSDGEMCLIANVGPETIEEVYALVPSLKATRSLNESPIMEALTAL 121



  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    0.132    0.371 

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: 4,700,502
Number of extensions: 167352
Number of successful extensions: 281
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 280
Number of HSP's successfully gapped: 2
Length of query: 142
Length of database: 17,035,801
Length adjustment: 91
Effective length of query: 51
Effective length of database: 12,284,327
Effective search space: 626500677
Effective search space used: 626500677
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: 151 (62.8 bits)