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= 0001.2218.p
         (236 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311653|ref|YP_003775745.1| ferric regulator sigma-24 subun...   114   5e-27

>gi|300311653|ref|YP_003775745.1| ferric regulator sigma-24 subunit
           [Herbaspirillum seropedicae SmR1]
          Length = 178

 Score =  114 bits (286), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 67/162 (41%), Positives = 92/162 (56%), Gaps = 4/162 (2%)

Query: 73  LIEVYLSRRSELRGVAAKIIARPEEVDDVLQDVYLRLASSTCASEVQNPFGYCCQVVRNT 132
           L E ++  R+ LR VA +I+  P   DDV+QD ++++A      +++ P  Y  ++VRN 
Sbjct: 12  LREQFIEHRARLRDVATRILGCPHRADDVVQDTFIKIAEVPDDFDIKQPVAYLYRIVRNL 71

Query: 133 AVNYCRRRMVEANHLVTTADGEMPEVEGGRAAEVGIDERRLLERIEAALATLPPRTRRVF 192
           A++  RR   E +      DG     EG     + I  R+ L  I  AL  LP RTRR F
Sbjct: 72  AIDRHRRSAFECDVFTEEEDGLDVHQEGDSPEAIAI-SRQYLSMIGRALEGLPARTRRAF 130

Query: 193 ELYRLEGRTQRDIAQCLGVSATLVNFMLKDVMAALASCGDLL 234
           ELYRL G TQR+IA  L +S TLVNFM++D   ALA C +LL
Sbjct: 131 ELYRLSGLTQREIAAELNISTTLVNFMIRD---ALACCRNLL 169


  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
   0.320    0.134    0.395 

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: 651,252
Number of extensions: 24395
Number of successful extensions: 107
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 110
Number of HSP's successfully gapped: 2
Length of query: 236
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 154
Effective length of database: 1,231,600
Effective search space: 189666400
Effective search space used: 189666400
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: 129 (54.3 bits)