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= 0180.0040.p
         (125 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314038|ref|YP_003778130.1| hypothetical protein Hsero_4761...    61   2e-11

>gi|300314038|ref|YP_003778130.1| hypothetical protein Hsero_4761
           [Herbaspirillum seropedicae SmR1]
          Length = 326

 Score = 61.2 bits (147), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/123 (31%), Positives = 60/123 (48%), Gaps = 5/123 (4%)

Query: 4   KLIEAGELQEQASDSDGRVKWLALTPQGRRTLAAVQAFGRKQVVGALEQLSANQQDAVAQ 63
           KL   G ++   +  DGR   L LT  G+     +  F   QV  AL ++    Q  + +
Sbjct: 80  KLEALGLVRRSPAPGDGRAFSLTLTEAGQVLRKKIDKFATDQVSAALRRIMPEDQQGLVR 139

Query: 64  GLGIYAQALEARRSGKAM----EQAGEIRIVAGYQAGVIGRIVQMHALFYARSVGFGSFF 119
            L +Y++AL +R +  A+      + E  +  GYQ G IG I  +HA +YA + GFG +F
Sbjct: 140 ALALYSEAL-SRDNPNAVAGSARGSAEAPLAQGYQPGCIGDIASLHARYYAEAAGFGVYF 198

Query: 120 XKK 122
             K
Sbjct: 199 EHK 201


  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
   0.322    0.134    0.373 

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: 355,719
Number of extensions: 13564
Number of successful extensions: 67
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 1
Length of query: 125
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 50
Effective length of database: 1,264,745
Effective search space: 63237250
Effective search space used: 63237250
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 125 (52.8 bits)