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____
         (33 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_Q8XAT0 Putative rho operon leader peptide n=28 Tax=Ente...    67   1e-10
UniRef50_D2TH63 Putative rho operon leader peptide n=1 Tax=Citro...    43   0.002

>UniRef50_Q8XAT0 Putative rho operon leader peptide n=28 Tax=Enterobacteriaceae
          RepID=LPRH_ECO57
          Length = 33

 Score = 67.4 bits (163), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 33/33 (100%), Positives = 33/33 (100%)

Query: 1  MRSEQISGSSLNPSCRFSSAYSPVTRQRKDMSR 33
          MRSEQISGSSLNPSCRFSSAYSPVTRQRKDMSR
Sbjct: 1  MRSEQISGSSLNPSCRFSSAYSPVTRQRKDMSR 33


>UniRef50_D2TH63 Putative rho operon leader peptide n=1 Tax=Citrobacter rodentium
          ICC168 RepID=D2TH63_CITRO
          Length = 30

 Score = 43.1 bits (100), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 18/29 (62%), Positives = 22/29 (75%)

Query: 4  EQISGSSLNPSCRFSSAYSPVTRQRKDMS 32
          ++    S NPSCRFS+AY PVTRQR DM+
Sbjct: 2  DRFWALSFNPSCRFSAAYFPVTRQRTDMN 30


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_Q8XAT0 Putative rho operon leader peptide n=28 Tax=Ente...    40   0.019
UniRef50_D2TH63 Putative rho operon leader peptide n=1 Tax=Citro...    40   0.026


CONVERGED!
>UniRef50_Q8XAT0 Putative rho operon leader peptide n=28 Tax=Enterobacteriaceae
          RepID=LPRH_ECO57
          Length = 33

 Score = 40.2 bits (92), Expect = 0.019,   Method: Composition-based stats.
 Identities = 33/33 (100%), Positives = 33/33 (100%)

Query: 1  MRSEQISGSSLNPSCRFSSAYSPVTRQRKDMSR 33
          MRSEQISGSSLNPSCRFSSAYSPVTRQRKDMSR
Sbjct: 1  MRSEQISGSSLNPSCRFSSAYSPVTRQRKDMSR 33


>UniRef50_D2TH63 Putative rho operon leader peptide n=1 Tax=Citrobacter rodentium
          ICC168 RepID=D2TH63_CITRO
          Length = 30

 Score = 39.8 bits (91), Expect = 0.026,   Method: Composition-based stats.
 Identities = 18/23 (78%), Positives = 20/23 (86%)

Query: 10 SLNPSCRFSSAYSPVTRQRKDMS 32
          S NPSCRFS+AY PVTRQR DM+
Sbjct: 8  SFNPSCRFSAAYFPVTRQRTDMN 30


  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
   0.313    0.119    0.328 

Lambda     K      H
   0.267   0.0370    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 106,961,195
Number of Sequences: 3077464
Number of extensions: 1588759
Number of successful extensions: 3085
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: 3081
Number of HSP's gapped (non-prelim): 4
length of query: 33
length of database: 1,040,396,356
effective HSP length: 8
effective length of query: 25
effective length of database: 1,015,776,644
effective search space: 25394416100
effective search space used: 25394416100
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 87 (38.3 bits)