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= 0248.0017.p
         (103 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309686|ref|YP_003773778.1| hypothetical protein Hsero_0344...   108   9e-26

>gi|300309686|ref|YP_003773778.1| hypothetical protein Hsero_0344
           [Herbaspirillum seropedicae SmR1]
          Length = 184

 Score =  108 bits (270), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 56/98 (57%), Positives = 74/98 (75%), Gaps = 1/98 (1%)

Query: 1   MNFEGGQLVLSMPNAALATKLKQQLPKLQERLIQDGWQVNAIRIKVQVGKNYVVPPPPRR 60
           ++FE G LV+S PNAALA +LKQQLP+LQ+RL++DGWQVN+IRIKVQVG+    P  P+R
Sbjct: 68  LHFEAGVLVMSAPNAALAARLKQQLPRLQDRLLKDGWQVNSIRIKVQVGRTE-PPSAPKR 126

Query: 61  QLTLPSLAVSSFAELNDALEDSPQNQALKAALANMVRR 98
            L L   A+SSFAEL+  L   P++Q LK A+  M++R
Sbjct: 127 VLELTEDALSSFAELSSNLARDPRSQGLKDAIDAMLQR 164


  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
   0.315    0.130    0.364 

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: 315,736
Number of extensions: 11260
Number of successful extensions: 42
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 41
Number of HSP's successfully gapped: 1
Length of query: 103
Length of database: 1,619,870
Length adjustment: 71
Effective length of query: 32
Effective length of database: 1,283,685
Effective search space: 41077920
Effective search space used: 41077920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 123 (52.0 bits)