BLASTP 2.2.22 [Sep-27-2009]


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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= batch____
         (55 letters)

Database: uniref50.fasta 
           3,077,464 sequences; 1,040,396,356 total letters

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


Results from round 1


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

UniRef50_P76096 Regulatory protein mokB n=24 Tax=Enterobacteriac...   114   7e-25

>UniRef50_P76096 Regulatory protein mokB n=24 Tax=Enterobacteriaceae
          RepID=MOKB_ECOLI
          Length = 55

 Score =  114 bits (286), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 55/55 (100%), Positives = 55/55 (100%)

Query: 1  MNLAIQILASYPPSGKEKGYEAQPSGGVSAHYLHYDSDIHTPDPTNALRTAVPGR 55
          MNLAIQILASYPPSGKEKGYEAQPSGGVSAHYLHYDSDIHTPDPTNALRTAVPGR
Sbjct: 1  MNLAIQILASYPPSGKEKGYEAQPSGGVSAHYLHYDSDIHTPDPTNALRTAVPGR 55


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


Results from round 2


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value
Sequences used in model and found again:

UniRef50_P76096 Regulatory protein mokB n=24 Tax=Enterobacteriac...   107   8e-23

Sequences not found previously or not previously below threshold:


CONVERGED!
>UniRef50_P76096 Regulatory protein mokB n=24 Tax=Enterobacteriaceae
          RepID=MOKB_ECOLI
          Length = 55

 Score =  107 bits (268), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 55/55 (100%), Positives = 55/55 (100%)

Query: 1  MNLAIQILASYPPSGKEKGYEAQPSGGVSAHYLHYDSDIHTPDPTNALRTAVPGR 55
          MNLAIQILASYPPSGKEKGYEAQPSGGVSAHYLHYDSDIHTPDPTNALRTAVPGR
Sbjct: 1  MNLAIQILASYPPSGKEKGYEAQPSGGVSAHYLHYDSDIHTPDPTNALRTAVPGR 55


  Database: uniref50.fasta
    Posted date:  Mar 8, 2010 10:38 AM
  Number of letters in database: 1,040,396,356
  Number of sequences in database:  3,077,464
  
Lambda     K      H
   0.312    0.131    0.394 

Lambda     K      H
   0.267   0.0407    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 255,060,031
Number of Sequences: 3077464
Number of extensions: 7794261
Number of successful extensions: 11348
Number of sequences better than 1.0e-01: 1
Number of HSP's better than  0.1 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 11346
Number of HSP's gapped (non-prelim): 2
length of query: 55
length of database: 1,040,396,356
effective HSP length: 28
effective length of query: 27
effective length of database: 954,227,364
effective search space: 25764138828
effective search space used: 25764138828
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 87 (38.1 bits)
