BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0009.0164.p
         (73 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309964|ref|YP_003774056.1| tRNA nucleotidyltransferase/pol...    87   4e-19

>gi|300309964|ref|YP_003774056.1| tRNA
          nucleotidyltransferase/poly(A) polymerase
          [Herbaspirillum seropedicae SmR1]
          Length = 534

 Score = 86.7 bits (213), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 48/89 (53%), Positives = 53/89 (59%), Gaps = 22/89 (24%)

Query: 1  MIKKFIRSFLGKKKELDTT----------------------EPTVLSQKQHGIDLQLVSP 38
          MIKK IRS LG+ K                           EP VL  K+HGID  LVSP
Sbjct: 1  MIKKLIRSILGRGKTAAAAASAEPPAPARKTRAKAGADGKIEPDVLGPKEHGIDPSLVSP 60

Query: 39 NAIRVTQTLQQAGFKAFIVGGAVRDLLXG 67
          NA+RVTQTLQ+AG+KAFIVGGAVRDLL G
Sbjct: 61 NAVRVTQTLQEAGYKAFIVGGAVRDLLLG 89


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.323    0.138    0.387 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 188,741
Number of extensions: 5364
Number of successful extensions: 19
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 18
Number of HSP's successfully gapped: 1
Length of query: 73
Length of database: 1,619,870
Length adjustment: 44
Effective length of query: 29
Effective length of database: 1,411,530
Effective search space: 40934370
Effective search space used: 40934370
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 123 (52.0 bits)