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= 0001.3490.p
         (156 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134094270|ref|YP_001099345.1| transcription termination, L fa...   249   6e-68

>gi|134094270|ref|YP_001099345.1| transcription termination, L
           factor (N utilization substance protein B)
           [Herminiimonas arsenicoxydans]
          Length = 156

 Score =  249 bits (635), Expect = 6e-68,   Method: Compositional matrix adjust.
 Identities = 120/156 (76%), Positives = 134/156 (85%), Gaps = 1/156 (0%)

Query: 1   MSNKSQHANSNKNRTPRHRAREFALQGLYQWLLNHEDAGAIEAHIRQAHGFDKADAEHFD 60
           M+ K+ HAN +KNRTPRHRAREFALQGLYQWLLN+ED   IE HIRQAHGFDKADAEHFD
Sbjct: 1   MTQKTDHANPSKNRTPRHRAREFALQGLYQWLLNNEDVRTIENHIRQAHGFDKADAEHFD 60

Query: 61  TLLTGAIRDADKLRAGLSPLIDRPIKELSPVEHAALLIGAYELQNHIEIPYKVVINEAVE 120
            LL G ++   +LRAGL+PLIDR I  LSPVEHAALLIGA+EL+NHIEIPYKVVINEAVE
Sbjct: 61  ALLYGTVKQVGELRAGLAPLIDREISALSPVEHAALLIGAFELKNHIEIPYKVVINEAVE 120

Query: 121 LAKSFGGIDGHKYVNGVLDRFAAQTRATEVEAAGRR 156
           L KSFGGIDGHKYVNGVLD+FAA  R  E+ +AGR+
Sbjct: 121 LTKSFGGIDGHKYVNGVLDKFAAGVREPEI-SAGRK 155


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.318    0.134    0.386 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 311,993
Number of extensions: 13069
Number of successful extensions: 37
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 37
Number of HSP's successfully gapped: 1
Length of query: 156
Length of database: 1,000,347
Length adjustment: 74
Effective length of query: 82
Effective length of database: 756,517
Effective search space: 62034394
Effective search space used: 62034394
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)