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= 0012.0082.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|300309909|ref|YP_003774001.1| transcription regulator protein...   105   1e-24
gi|300309900|ref|YP_003773992.1| transcription regulator protein...    78   2e-16

>gi|300309909|ref|YP_003774001.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 124

 Score =  105 bits (261), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 50/97 (51%), Positives = 67/97 (69%)

Query: 6   LFAADCPSRSVLKHLTSRWGVLLLVALLGGTHRFSDLRRKVGGVSEKMLAQTLQELEGDG 65
           +F ADCP+R VL  L  +W +L+L AL   T+R ++LRR++GGVSEKML Q L+ LE  G
Sbjct: 15  VFLADCPARDVLALLAEKWTLLVLHALSEKTYRTAELRRRIGGVSEKMLIQALRRLEQHG 74

Query: 66  LVIRKSYDVVPPHVDYTLSPLGQEAAQRIETLTDWIE 102
           LV R SY  VPPHV+Y+L+PLG   +  +  L  W+E
Sbjct: 75  LVSRMSYQTVPPHVEYSLTPLGVSLSSIVCALDTWVE 111


>gi|300309900|ref|YP_003773992.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 132

 Score = 78.2 bits (191), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 36/100 (36%), Positives = 59/100 (59%)

Query: 13  SRSVLKHLTSRWGVLLLVALLGGTHRFSDLRRKVGGVSEKMLAQTLQELEGDGLVIRKSY 72
           +R +L  +  +W + ++  L  GT RF++L+R++ G+S++ML  TL+ LE DGL+ R  Y
Sbjct: 23  TREILDRVGDKWSLYIIATLANGTRRFNELKREIDGISQRMLTLTLRGLERDGLITRTIY 82

Query: 73  DVVPPHVDYTLSPLGQEAAQRIETLTDWIEMSLPRFMAAR 112
             +PP VDY L+ LG      + +L  W + +     AAR
Sbjct: 83  PTIPPRVDYELTALGMTLWGPVMSLVKWADANKLAISAAR 122


  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
   0.318    0.134    0.387 

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: 320,039
Number of extensions: 10485
Number of successful extensions: 42
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 42
Number of HSP's successfully gapped: 3
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 125 (52.8 bits)