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= Os07g0116900 Os07g0116900|AK065960
         (114 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Os07g0116900  NADH ubiquinone oxidoreductase, 20 kDa subunit...   234   7e-63
Os05g0533700  Similar to NADH-ubiquinone oxidoreductase 20 k...    89   5e-19
Os03g0419500                                                       85   1e-17

>Os07g0116900 NADH ubiquinone oxidoreductase, 20 kDa subunit domain containing
           protein
          Length = 114

 Score =  234 bits (598), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 114/114 (100%), Positives = 114/114 (100%)

Query: 1   MAWRRDRERQEQPDARRARCATAAGYWLRDGGGGCRSGRVSDLQGRRPHELGAEGVDLAY 60
           MAWRRDRERQEQPDARRARCATAAGYWLRDGGGGCRSGRVSDLQGRRPHELGAEGVDLAY
Sbjct: 1   MAWRRDRERQEQPDARRARCATAAGYWLRDGGGGCRSGRVSDLQGRRPHELGAEGVDLAY 60

Query: 61  CAVEMMHAGASCYDFDRFRVIFRPSPRQSDCMIIVGTLTNKMGPALGKTNGIVR 114
           CAVEMMHAGASCYDFDRFRVIFRPSPRQSDCMIIVGTLTNKMGPALGKTNGIVR
Sbjct: 61  CAVEMMHAGASCYDFDRFRVIFRPSPRQSDCMIIVGTLTNKMGPALGKTNGIVR 114



>Os05g0533700 Similar to NADH-ubiquinone oxidoreductase 20 kDa subunit,
           mitochondrial precursor (EC 1.6.5.3) (EC 1.6.99.3)
           (Complex I-20KD) (CI-20KD)
          Length = 154

 Score = 89.4 bits (220), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 43/52 (82%), Positives = 44/52 (84%)

Query: 58  LAYCAVEMMHAGASCYDFDRFRVIFRPSPRQSDCMIIVGTLTNKMGPALGKT 109
           LA CAVEMMH GAS YDFDRF VIFRPSPRQSDCMI+ GTLTNKM PAL K 
Sbjct: 27  LACCAVEMMHTGASRYDFDRFGVIFRPSPRQSDCMIVAGTLTNKMAPALRKV 78



>Os03g0419500 
          Length = 89

 Score = 85.1 bits (209), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 43/52 (82%), Positives = 44/52 (84%)

Query: 58  LAYCAVEMMHAGASCYDFDRFRVIFRPSPRQSDCMIIVGTLTNKMGPALGKT 109
           LA  AVEMMHAGAS YDFDRF VIF PSPRQSDCMII GTLTNKM PAL K+
Sbjct: 5   LACFAVEMMHAGASRYDFDRFGVIFHPSPRQSDCMIITGTLTNKMVPALRKS 56



  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
   0.325    0.139    0.453 

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: 4,764,233
Number of extensions: 208049
Number of successful extensions: 970
Number of sequences better than 1.0e-10: 3
Number of HSP's gapped: 970
Number of HSP's successfully gapped: 3
Length of query: 114
Length of database: 17,035,801
Length adjustment: 81
Effective length of query: 33
Effective length of database: 12,806,467
Effective search space: 422613411
Effective search space used: 422613411
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 149 (62.0 bits)