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= 0225.0004.p
         (71 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311850|ref|YP_003775942.1| AraC family transcription regul...    63   4e-12
gi|300313912|ref|YP_003778004.1| AraC family transcription regul...    60   3e-11
gi|300313081|ref|YP_003777173.1| transcription regulator protein...    56   7e-10
gi|300312798|ref|YP_003776890.1| AraC family transcription regul...    55   1e-09

>gi|300311850|ref|YP_003775942.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 343

 Score = 63.2 bits (152), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 30/47 (63%), Positives = 37/47 (78%)

Query: 1   VTTHWNDAAALARDFPELEVDADRIYLCDGKLVTSAGVTAGIDLSLA 47
           VTTHW+ A  L R +P L+VDAD IY+  G++ TSAGVTAGIDL+LA
Sbjct: 135 VTTHWDWAQELQRRYPALQVDADPIYIRQGRIWTSAGVTAGIDLALA 181


>gi|300313912|ref|YP_003778004.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 313

 Score = 60.1 bits (144), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 36/46 (78%)

Query: 2   TTHWNDAAALARDFPELEVDADRIYLCDGKLVTSAGVTAGIDLSLA 47
           TTHW  A A+   FP+++V+ DRIY+ DG L TSAG+TAG+DL+LA
Sbjct: 122 TTHWAFARAMQERFPDIQVEDDRIYIVDGPLWTSAGMTAGLDLALA 167


>gi|300313081|ref|YP_003777173.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 330

 Score = 55.8 bits (133), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 35/46 (76%)

Query: 2   TTHWNDAAALARDFPELEVDADRIYLCDGKLVTSAGVTAGIDLSLA 47
           TTHW  AA L +  P ++VD+DRIY  DG + TSAG++AGIDL+LA
Sbjct: 124 TTHWRMAAKLQQMHPAVKVDSDRIYSRDGAVWTSAGISAGIDLALA 169


>gi|300312798|ref|YP_003776890.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 335

 Score = 54.7 bits (130), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/47 (57%), Positives = 32/47 (68%)

Query: 1   VTTHWNDAAALARDFPELEVDADRIYLCDGKLVTSAGVTAGIDLSLA 47
           VTTHW     L + FP+ +VD D IY  DG + TSAGVT GIDL+LA
Sbjct: 141 VTTHWAAVDLLQQYFPKAKVDPDAIYRIDGPICTSAGVTTGIDLALA 187


  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
   0.316    0.131    0.386 

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: 226,459
Number of extensions: 7211
Number of successful extensions: 32
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 32
Number of HSP's successfully gapped: 4
Length of query: 71
Length of database: 1,619,870
Length adjustment: 43
Effective length of query: 28
Effective length of database: 1,416,265
Effective search space: 39655420
Effective search space used: 39655420
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)