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= 0034.0420.p
         (119 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309383|ref|YP_003773475.1| permease [Herbaspirillum serope...   162   9e-42

>gi|300309383|ref|YP_003773475.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 412

 Score =  162 bits (409), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 94/119 (78%), Positives = 104/119 (87%)

Query: 1   VTRLGIGLAILSFVAMASGPAFSASGQLWLLALAAIGFDLGVQATLVAHQTIVYSIEPGA 60
           VTRLG+GLAI+SF AMA  P FS  GQL LLA+AA+GFDLGVQATLVAHQTIVYSIEPGA
Sbjct: 294 VTRLGVGLAIVSFAAMALSPWFSTQGQLVLLAVAAVGFDLGVQATLVAHQTIVYSIEPGA 353

Query: 61  RSRLNAVLFVGMFVGMAAGAALGSLLLAQWGWIGVVGLATVASLSALLVRLLPGKNRDR 119
           RSRLNA+LFVGMF+GMAAGAALGSL+LAQWGWI VV LAT+A+  AL+VRL PG  R R
Sbjct: 354 RSRLNAILFVGMFIGMAAGAALGSLVLAQWGWIAVVALATLAAGLALVVRLWPGAARAR 412


  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
   0.326    0.139    0.409 

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: 258,780
Number of extensions: 7556
Number of successful extensions: 58
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 2
Length of query: 119
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 45
Effective length of database: 1,269,480
Effective search space: 57126600
Effective search space used: 57126600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 124 (52.4 bits)