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= 0016.0004.p
         (325 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312976|ref|YP_003777068.1| GGDEF family protein [Herbaspir...   151   6e-38
gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709...    56   4e-09

>gi|300312976|ref|YP_003777068.1| GGDEF family protein
          [Herbaspirillum seropedicae SmR1]
          Length = 324

 Score =  151 bits (382), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 73/74 (98%), Positives = 73/74 (98%)

Query: 1  MRIAELPANEAARIDALHSLRILDTPREERFDRLTRLARRLFDVPMAVVTMIDVNRQWFK 60
          MRIAELPANEAARIDALHSLRILDTPREERFDRLTRLARRLFDVPMAVVTMIDVNRQWFK
Sbjct: 1  MRIAELPANEAARIDALHSLRILDTPREERFDRLTRLARRLFDVPMAVVTMIDVNRQWFK 60

Query: 61 SCVGLGDATETSRR 74
          SCVGLGDATETSR 
Sbjct: 61 SCVGLGDATETSRE 74


>gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709
          [Herbaspirillum seropedicae SmR1]
          Length = 598

 Score = 56.2 bits (134), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 45/65 (69%), Gaps = 1/65 (1%)

Query: 9  NEAARIDALHSLRILDTPREERFDRLTRLARRLFDVPMAVVTMIDVNRQWFKSCVGLGDA 68
           E+ R+  LH    LDTP ++  D++T+LA  +FDV +A+V ++D +RQWFKS VGL + 
Sbjct: 17 QESQRLAQLHGYCALDTPPDKLCDQVTQLACSMFDVEIALVALVDEHRQWFKSRVGL-EV 75

Query: 69 TETSR 73
          +ET R
Sbjct: 76 SETPR 80


  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
   0.336    0.147    0.503 

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: 903,379
Number of extensions: 30917
Number of successful extensions: 98
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 98
Number of HSP's successfully gapped: 2
Length of query: 325
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 240
Effective length of database: 1,217,395
Effective search space: 292174800
Effective search space used: 292174800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 131 (55.1 bits)