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= 0001.0109.p
         (196 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134096333|ref|YP_001101408.1| transcription antitermination p...   295   1e-81

>gi|134096333|ref|YP_001101408.1| transcription antitermination
           protein [Herminiimonas arsenicoxydans]
          Length = 159

 Score =  295 bits (754), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 140/158 (88%), Positives = 153/158 (96%)

Query: 39  RALTERINRAGMQDQFGQILVPTEEVVDMKNGHKSVTERRFFPGYVLVEMEMTDETWHLV 98
           RALTERI RAGMQDQFGQILVPTEEV+++KNG KSV+ERRFFPGYVLVEMEMTDETWHLV
Sbjct: 2   RALTERIARAGMQDQFGQILVPTEEVIEVKNGQKSVSERRFFPGYVLVEMEMTDETWHLV 61

Query: 99  KNTAKVTGFIGGKSNRPTPLPQREVDSLLRQMQEGVEKPRPKVLYEVGEMVRIKEGPFTD 158
           KNT+KVTGFIGGKSN+PTP+P  EVD +++QMQEGVEKPRPKVLYEVGEMVRIK+GPFTD
Sbjct: 62  KNTSKVTGFIGGKSNKPTPIPPHEVDKIMQQMQEGVEKPRPKVLYEVGEMVRIKDGPFTD 121

Query: 159 FNGNVEEVNYEKSRVRVSVTIFGRATPVELEFGQLEKV 196
           FNGNVEEVNYEKS+VRVSVTIFGRATPVELEFGQ+EKV
Sbjct: 122 FNGNVEEVNYEKSKVRVSVTIFGRATPVELEFGQVEKV 159


  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
   0.314    0.131    0.372 

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: 365,347
Number of extensions: 14545
Number of successful extensions: 34
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 34
Number of HSP's successfully gapped: 1
Length of query: 196
Length of database: 1,000,347
Length adjustment: 77
Effective length of query: 119
Effective length of database: 746,632
Effective search space: 88849208
Effective search space used: 88849208
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: 42 (22.0 bits)
S2: 126 (53.1 bits)