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= 0001.1592.p
         (192 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134094464|ref|YP_001099539.1| putative RNA polymerase sigma f...   296   3e-82

>gi|134094464|ref|YP_001099539.1| putative RNA polymerase sigma
           factor [Herminiimonas arsenicoxydans]
          Length = 189

 Score =  296 bits (759), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 142/192 (73%), Positives = 162/192 (84%), Gaps = 3/192 (1%)

Query: 1   MATDKELSDFLESVERRAFKQAVYAVRKDEAALDIVQDAMIKLAEKYGDKPVDELPMLFQ 60
           MATDKELSDFL  VERRAFKQA+YAVRKDE+A DIVQDAMIKLAEKYGDKP  ELPMLFQ
Sbjct: 1   MATDKELSDFLADVERRAFKQALYAVRKDESAFDIVQDAMIKLAEKYGDKPAAELPMLFQ 60

Query: 61  RILQNTIHDFFRREKVRNTWVSLFSSFGGNGGDGEGSEDFDLLESLESEDGSEAAESSAD 120
           RILQNTI D+FRREKVR++W+SLFSSFG    D    E+FD ++ +E+E+GS  AE+   
Sbjct: 61  RILQNTIRDYFRREKVRSSWISLFSSFGNKQED---QENFDAMDMVEAEEGSYGAETGLG 117

Query: 121 KVERQQTLNLIDAEIQKLPTRQREAFLMRYWQDMDVAETAAAMGCSEGSVKTHCSRATHA 180
           K+ER+Q L  I+ E+Q LP RQREAFLMRYWQD++VAETA AMGCSEGSVKTHCSRATH 
Sbjct: 118 KLERKQVLEFIEHEVQNLPARQREAFLMRYWQDLNVAETATAMGCSEGSVKTHCSRATHT 177

Query: 181 LAQALRAKGISL 192
           LAQAL+AKGI L
Sbjct: 178 LAQALKAKGIYL 189


  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
   0.316    0.130    0.361 

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: 249,870
Number of extensions: 7387
Number of successful extensions: 36
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 35
Number of HSP's successfully gapped: 1
Length of query: 192
Length of database: 1,000,347
Length adjustment: 77
Effective length of query: 115
Effective length of database: 746,632
Effective search space: 85862680
Effective search space used: 85862680
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: 126 (53.1 bits)