RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= 537021.9.peg.834_1
         (42 letters)



>gnl|CDD|34711 COG5108, RPO41, Mitochondrial DNA-directed RNA polymerase
          [Transcription].
          Length = 1117

 Score = 25.4 bits (55), Expect = 3.2
 Identities = 4/37 (10%), Positives = 17/37 (45%), Gaps = 2/37 (5%)

Query: 5  KNFSQLFTYLDIPRHKYRIMGILAEYLIANSFIKSDN 41
          ++   L +++D  +    ++ ++  Y+     I+  +
Sbjct: 46 RSKQLLKSFIDHNKGDKILLPMINLYI--REIIQRGS 80


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.328    0.142    0.411 

Gapped
Lambda     K      H
   0.267   0.0526    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 500,476
Number of extensions: 14587
Number of successful extensions: 56
Number of sequences better than 10.0: 1
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 1
Length of query: 42
Length of database: 6,263,737
Length adjustment: 16
Effective length of query: 26
Effective length of database: 5,917,993
Effective search space: 153867818
Effective search space used: 153867818
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.9 bits)