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= 0093.0028.p
         (105 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies...   123   4e-30

>gi|300312904|ref|YP_003776996.1| diguanylate
           cyclase/phosphodiesterase with PAS/PAC sensor domains
           protein [Herbaspirillum seropedicae SmR1]
          Length = 701

 Score =  123 bits (308), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 55/88 (62%), Positives = 68/88 (77%)

Query: 18  SIARPSRLLETLLANLDGMVYRCRDDDEWTMEFISEGCLELTGYQPEDLLFNHRISYEDI 77
           +I R  RLLETLL NLDG+VYRCRDD +WTMEF+SEGCL LTGY PEDLL N R+S+ ++
Sbjct: 2   AIPRSPRLLETLLVNLDGVVYRCRDDAQWTMEFVSEGCLALTGYLPEDLLLNQRLSFLEL 61

Query: 78  THPEDRETVRQTIRACLDGKRRFELMTR 105
           THPEDR  VR  + AC+  +RR ++  R
Sbjct: 62  THPEDRTLVRNHVDACMRERRRIDIEYR 89


  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    0.137    0.406 

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: 300,206
Number of extensions: 10190
Number of successful extensions: 42
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 44
Number of HSP's successfully gapped: 1
Length of query: 105
Length of database: 1,619,870
Length adjustment: 72
Effective length of query: 33
Effective length of database: 1,278,950
Effective search space: 42205350
Effective search space used: 42205350
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: 123 (52.0 bits)