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/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152980869|ref|YP_001353841.1| ECF subfamily RNA polymerase si...   303   6e-84

>gi|152980869|ref|YP_001353841.1| ECF subfamily RNA polymerase sigma
           factor [Janthinobacterium sp. Marseille]
          Length = 189

 Score =  303 bits (775), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 145/192 (75%), Positives = 165/192 (85%), Gaps = 3/192 (1%)

Query: 1   MATDKELSDFLESVERRAFKQAVYAVRKDEAALDIVQDAMIKLAEKYGDKPVDELPMLFQ 60
           MATDKELSDFLE VERRAFKQAVYAVRK+E+ALDIVQDAMIKLAEKYGDKP  ELPMLFQ
Sbjct: 1   MATDKELSDFLEDVERRAFKQAVYAVRKEESALDIVQDAMIKLAEKYGDKPAPELPMLFQ 60

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

Query: 121 KVERQQTLNLIDAEIQKLPTRQREAFLMRYWQDMDVAETAAAMGCSEGSVKTHCSRATHA 180
           K+ER+Q L  I+ E+Q LP+RQREAFLMRYWQD++VAETAA MGCSEGSVKTHCSRATHA
Sbjct: 118 KLERKQVLEFIEHEVQNLPSRQREAFLMRYWQDLNVAETAAVMGCSEGSVKTHCSRATHA 177

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


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
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: 3697
Number of Hits to DB: 301,079
Number of extensions: 8833
Number of successful extensions: 59
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 1
Length of query: 192
Length of database: 1,221,021
Length adjustment: 78
Effective length of query: 114
Effective length of database: 932,655
Effective search space: 106322670
Effective search space used: 106322670
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: 127 (53.5 bits)