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____
         (24 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_P62550 Positive regulator of RepFIC repA1 expression n=...    47   3e-04
UniRef50_Q2VP20 Positive regulator of repfic repa1 expression (R...    46   4e-04

>UniRef50_P62550 Positive regulator of RepFIC repA1 expression n=9 Tax=Bacteria
          RepID=REPL2_ECOLX
          Length = 24

 Score = 46.6 bits (109), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/23 (95%), Positives = 22/23 (95%)

Query: 1  MPGKVQDFFLCSLLLCIVSAGWC 23
          MPGKVQDFFLCSLLL IVSAGWC
Sbjct: 1  MPGKVQDFFLCSLLLRIVSAGWC 23


>UniRef50_Q2VP20 Positive regulator of repfic repa1 expression (Repa1 leader
          peptide) n=4 Tax=cellular organisms RepID=Q2VP20_ECOLX
          Length = 24

 Score = 45.8 bits (107), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/23 (91%), Positives = 22/23 (95%)

Query: 1  MPGKVQDFFLCSLLLCIVSAGWC 23
          MPGKVQDFFLC+LLL IVSAGWC
Sbjct: 1  MPGKVQDFFLCTLLLRIVSAGWC 23


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


Results from round 2


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

Sequences not found previously or not previously below threshold:

UniRef50_P62550 Positive regulator of RepFIC repA1 expression n=...    39   0.057
UniRef50_Q2VP20 Positive regulator of repfic repa1 expression (R...    38   0.074


CONVERGED!
>UniRef50_P62550 Positive regulator of RepFIC repA1 expression n=9 Tax=Bacteria
          RepID=REPL2_ECOLX
          Length = 24

 Score = 38.7 bits (89), Expect = 0.057,   Method: Composition-based stats.
 Identities = 22/23 (95%), Positives = 22/23 (95%)

Query: 1  MPGKVQDFFLCSLLLCIVSAGWC 23
          MPGKVQDFFLCSLLL IVSAGWC
Sbjct: 1  MPGKVQDFFLCSLLLRIVSAGWC 23


>UniRef50_Q2VP20 Positive regulator of repfic repa1 expression (Repa1 leader
          peptide) n=4 Tax=cellular organisms RepID=Q2VP20_ECOLX
          Length = 24

 Score = 38.3 bits (88), Expect = 0.074,   Method: Composition-based stats.
 Identities = 21/23 (91%), Positives = 22/23 (95%)

Query: 1  MPGKVQDFFLCSLLLCIVSAGWC 23
          MPGKVQDFFLC+LLL IVSAGWC
Sbjct: 1  MPGKVQDFFLCTLLLRIVSAGWC 23


  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
   0.332    0.158    0.602 

Lambda     K      H
   0.267   0.0473    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 113,793,132
Number of Sequences: 3077464
Number of extensions: 1508147
Number of successful extensions: 6731
Number of sequences better than 1.0e-01: 2
Number of HSP's better than  0.1 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6727
Number of HSP's gapped (non-prelim): 4
length of query: 24
length of database: 1,040,396,356
effective HSP length: 0
effective length of query: 24
effective length of database: 1,040,396,356
effective search space: 24969512544
effective search space used: 24969512544
T: 11
A: 40
X1: 16 ( 7.7 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.3 bits)
S2: 87 (37.9 bits)