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= Os01g0772200 Os01g0772200|AK060471
         (138 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os01g0772200  Transcription initiation factor IIF, beta subu...   220   2e-58
Os05g0509900  Transcription initiation factor IIF, beta subu...   184   1e-47

>Os01g0772200 Transcription initiation factor IIF, beta subunit family protein
          Length = 138

 Score =  220 bits (561), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 113/138 (81%), Positives = 113/138 (81%)

Query: 1   MAEEAKNLETARADRSVWLMKCPTVVSRAWQEXXXXXXXXXXXXXXXXXXXXXXXXXPNP 60
           MAEEAKNLETARADRSVWLMKCPTVVSRAWQE                         PNP
Sbjct: 1   MAEEAKNLETARADRSVWLMKCPTVVSRAWQEAATAAASSSSSSDAAAGANSNSNANPNP 60

Query: 61  VVAKVIVSLDPLRSEDQQLQFKMEMAQTGNGNTPKSYSLNMFKDFVPMCVFSESNQGKLS 120
           VVAKVIVSLDPLRSEDQQLQFKMEMAQTGNGNTPKSYSLNMFKDFVPMCVFSESNQGKLS
Sbjct: 61  VVAKVIVSLDPLRSEDQQLQFKMEMAQTGNGNTPKSYSLNMFKDFVPMCVFSESNQGKLS 120

Query: 121 CEGKVGHKFDMEPHSDEN 138
           CEGKVGHKFDMEPHSDEN
Sbjct: 121 CEGKVGHKFDMEPHSDEN 138



>Os05g0509900 Transcription initiation factor IIF, beta subunit family protein
          Length = 259

 Score =  184 bits (468), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 94/136 (69%), Positives = 99/136 (72%), Gaps = 14/136 (10%)

Query: 1   MAEEAKNLETARADRSVWLMKCPTVVSRAWQEXXXXXXXXXXXXXXXXXXXXXXXXXPNP 60
           M EEAK LETARA+RSVWLMKCP VVS AWQ                          PNP
Sbjct: 1   MGEEAKYLETARAERSVWLMKCPPVVSHAWQ--------------GAVSSSDAAGSNPNP 46

Query: 61  VVAKVIVSLDPLRSEDQQLQFKMEMAQTGNGNTPKSYSLNMFKDFVPMCVFSESNQGKLS 120
           VVAKV++SLD LRSE+  LQFKMEMAQT  GNTPKSYSLNM KDFVPMCVFSESNQGKLS
Sbjct: 47  VVAKVVLSLDLLRSEEPSLQFKMEMAQTNTGNTPKSYSLNMSKDFVPMCVFSESNQGKLS 106

Query: 121 CEGKVGHKFDMEPHSD 136
           CEGKV HKFDM+PHSD
Sbjct: 107 CEGKVEHKFDMKPHSD 122



  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    0.128    0.381 

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: 3,843,387
Number of extensions: 112656
Number of successful extensions: 133
Number of sequences better than 1.0e-10: 2
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 2
Length of query: 138
Length of database: 17,035,801
Length adjustment: 90
Effective length of query: 48
Effective length of database: 12,336,541
Effective search space: 592153968
Effective search space used: 592153968
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 (22.0 bits)
S2: 150 (62.4 bits)