BLASTP 2.2.26 [Sep-21-2011]


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= 017898
         (364 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|B2G8Y5|RPOC_LACRJ DNA-directed RNA polymerase subunit beta' OS=Lactobacillus reuteri
           (strain JCM 1112) GN=rpoC PE=3 SV=1
          Length = 1211

 Score = 37.4 bits (85), Expect = 0.18,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 36/74 (48%), Gaps = 25/74 (33%)

Query: 285 PLIP---------IIFEVYRLYQLSKAANFIERL----------------MFSMKDLPRS 319
           PL+P         +I EVY+ Y+++K + F++R+                M  + DLP  
Sbjct: 610 PLVPPFKKGFLSDLIAEVYKRYKVTKTSQFLDRIKDLGYYESTISGLTTAMSDIHDLPEK 669

Query: 320 PELLERGSAMVSMV 333
           PE+L++    V+++
Sbjct: 670 PEILDKAQKQVTLI 683


>sp|A5VLL3|RPOC_LACRD DNA-directed RNA polymerase subunit beta' OS=Lactobacillus reuteri
           (strain DSM 20016) GN=rpoC PE=3 SV=1
          Length = 1211

 Score = 37.4 bits (85), Expect = 0.18,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 36/74 (48%), Gaps = 25/74 (33%)

Query: 285 PLIP---------IIFEVYRLYQLSKAANFIERL----------------MFSMKDLPRS 319
           PL+P         +I EVY+ Y+++K + F++R+                M  + DLP  
Sbjct: 610 PLVPPFKKGFLSDLIAEVYKRYKVTKTSQFLDRIKDLGYYESTISGLTTAMSDIHDLPEK 669

Query: 320 PELLERGSAMVSMV 333
           PE+L++    V+++
Sbjct: 670 PEILDKAQKQVTLI 683


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.325    0.140    0.426 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 129,713,796
Number of Sequences: 539616
Number of extensions: 5444585
Number of successful extensions: 14351
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 14350
Number of HSP's gapped (non-prelim): 6
length of query: 364
length of database: 191,569,459
effective HSP length: 119
effective length of query: 245
effective length of database: 127,355,155
effective search space: 31202012975
effective search space used: 31202012975
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 62 (28.5 bits)