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= 0001.3039.p
         (195 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134095261|ref|YP_001100336.1| RNA polymerase sigma factor Rpo...    64   5e-12

>gi|134095261|ref|YP_001100336.1| RNA polymerase sigma factor RpoE
           [Herminiimonas arsenicoxydans]
          Length = 200

 Score = 63.9 bits (154), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 52/178 (29%), Positives = 89/178 (50%), Gaps = 18/178 (10%)

Query: 21  VMRERSRLGGFIRRRVADAGEAEDILQEVFYEFVQAYRLPEPIEQVSA---WLFRV---- 73
           V++ + +L   + R V D  EAED++QE F   ++AYR        SA   WL+R+    
Sbjct: 27  VIKYQRKLMRLVSRLVRDQAEAEDVVQEAF---IKAYRALPQFRGDSAFYTWLYRIGINT 83

Query: 74  ARNRIIDRFRKKKEEPLPEAHDIEQVDGAEDAWRLDLVLPASADGPEAAYARAALIEALQ 133
           A+N ++ + R+    P     DIE+ +  +D   L  +     + PE+  A   + + L 
Sbjct: 84  AKNYLVTQGRRA---PTSTEADIEEAETFDDGEHLRDI-----NTPESLLATKQIAQTLN 135

Query: 134 EALDELPEAQREVFIAHELDGLSFKAMAASSGTSLNTLLARKRYAVLHLRERLQAVYD 191
            A++ELPE  R      E++GLS+  +A S G  + T+ +R   A   + E+L+ + D
Sbjct: 136 LAMEELPEELRMAITLREIEGLSYDEIAVSMGCPIGTVRSRIFRAREAISEKLRPLLD 193


  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
   0.319    0.134    0.373 

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: 337,874
Number of extensions: 12164
Number of successful extensions: 60
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 61
Number of HSP's successfully gapped: 1
Length of query: 195
Length of database: 1,000,347
Length adjustment: 77
Effective length of query: 118
Effective length of database: 746,632
Effective search space: 88102576
Effective search space used: 88102576
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 126 (53.1 bits)