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= 0002.0140.p
         (232 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309805|ref|YP_003773897.1| transcription regulator protein...   338   2e-94

>gi|300309805|ref|YP_003773897.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 193

 Score =  338 bits (867), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 162/192 (84%), Positives = 179/192 (93%)

Query: 41  ELDLTDHFLIAMPSMLDPVFGGTVVYLCEHNQNGALGVVINKPTDMTMDVLFDRINLKLE 100
           ELDLT+HFLIAMPSMLDP+FGGTVVYLCEHN NGALGVVINKPTDMTMDVLFDRINLKLE
Sbjct: 2   ELDLTNHFLIAMPSMLDPIFGGTVVYLCEHNHNGALGVVINKPTDMTMDVLFDRINLKLE 61

Query: 101 IIHDTPEAKPGLYRSQVMFGGPVQVERGFVLHSAMDQFSSTLQVTEGISLTTSKDVLEAV 160
           I  DTP+A P LYR  VMFGGPVQVERGFVLHS  +++SSTLQVT+ ++LTTSKDVLEAV
Sbjct: 62  IQPDTPDAMPELYRRPVMFGGPVQVERGFVLHSTSEKYSSTLQVTDEVALTTSKDVLEAV 121

Query: 161 AHGDGPEQVLVSLGCSGWSAGQLEEELGRNGWLTVKADPAIIFDLPVEQRFTAALALLGI 220
           AHG+GP++VLV+LGCSGWS GQLE E+GRNGWLTVKADP+IIF+LPVE+RFTAALALLGI
Sbjct: 122 AHGNGPDRVLVTLGCSGWSPGQLEGEIGRNGWLTVKADPSIIFELPVEERFTAALALLGI 181

Query: 221 DPVMLSGDFGRA 232
           DPVMLSGD GRA
Sbjct: 182 DPVMLSGDAGRA 193


  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    0.135    0.394 

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: 781,780
Number of extensions: 32395
Number of successful extensions: 124
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 1
Length of query: 232
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 150
Effective length of database: 1,231,600
Effective search space: 184740000
Effective search space used: 184740000
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: 129 (54.3 bits)