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= 0029.0060.p
         (117 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309399|ref|YP_003773491.1| hypothetical protein Hsero_0053...   109   5e-26

>gi|300309399|ref|YP_003773491.1| hypothetical protein Hsero_0053
           [Herbaspirillum seropedicae SmR1]
          Length = 118

 Score =  109 bits (273), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 55/92 (59%), Positives = 67/92 (72%), Gaps = 1/92 (1%)

Query: 25  PRPHRRRERLDITLLEIDPREVVEGMVLDNGMFLAPDPIPVGTMRETCPHCEGVALQLVL 84
           PR  +R   L + L+E+DPREV++G ++  G +L  D IPVG MRE CPHCEGVALQLVL
Sbjct: 28  PRYEQRTTPLLLKLVELDPREVIDG-IMTPGGYLTADVIPVGPMREACPHCEGVALQLVL 86

Query: 85  RRHQVKRSHLFCDHCTRCYDALCDGGYSILGI 116
           R   V+RSHLFC  CTR YDAL D GYS+L +
Sbjct: 87  RHRHVRRSHLFCRVCTRVYDALNDSGYSVLTV 118


  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    0.142    0.452 

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: 339,578
Number of extensions: 10964
Number of successful extensions: 40
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 39
Number of HSP's successfully gapped: 1
Length of query: 117
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 43
Effective length of database: 1,269,480
Effective search space: 54587640
Effective search space used: 54587640
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 (21.6 bits)
S2: 124 (52.4 bits)