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= 0001.2739.p
         (164 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134096429|ref|YP_001101504.1| putative RNA polymerase sigma f...   184   3e-48
gi|134095261|ref|YP_001100336.1| RNA polymerase sigma factor Rpo...    65   2e-12

>gi|134096429|ref|YP_001101504.1| putative RNA polymerase sigma
           factor [Herminiimonas arsenicoxydans]
          Length = 168

 Score =  184 bits (466), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 91/150 (60%), Positives = 113/150 (75%), Gaps = 1/150 (0%)

Query: 1   MLACLPRLRRYARALTGARDSADDLVQDTLERAWQRLDSYQRGSDMRPWLFAIMHNLHAD 60
           ++AC+PRLRRYARAL G R  ADDLVQDT+ER W++L S+QRGSDMR WLF IMHNLH D
Sbjct: 8   LIACIPRLRRYARALIGERTGADDLVQDTMERGWKKLSSWQRGSDMRAWLFGIMHNLHID 67

Query: 61  QRRKPALATVELEQADEASATPLLPDQGLAL-DMEAALQRLPAEQREVLLLVVLEEMRYE 119
           Q R+P + T  L+       +      GL + D+++AL  LP EQRE+LLLV LEEM YE
Sbjct: 68  QVRRPGIMTEVLDDDTPLPTSKATQADGLEMRDLQSALATLPPEQREILLLVALEEMSYE 127

Query: 120 DVAVTLGIPVGTVMSRLSRARERLRQSMDG 149
           +VA TLG+P+GTVMSRLSRAR++LR  M+G
Sbjct: 128 EVATTLGLPLGTVMSRLSRARQKLRAHMEG 157


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

 Score = 65.1 bits (157), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/156 (28%), Positives = 78/156 (50%), Gaps = 15/156 (9%)

Query: 7   RLRRYARALTGARDSADDLVQDTLERAWQRLDSYQRGSDMRPWLFAIMHN-----LHADQ 61
           +L R    L   +  A+D+VQ+   +A++ L  ++  S    WL+ I  N     L    
Sbjct: 33  KLMRLVSRLVRDQAEAEDVVQEAFIKAYRALPQFRGDSAFYTWLYRIGINTAKNYLVTQG 92

Query: 62  RRKPALATVELEQA----------DEASATPLLPDQGLALDMEAALQRLPAEQREVLLLV 111
           RR P     ++E+A          D  +   LL  + +A  +  A++ LP E R  + L 
Sbjct: 93  RRAPTSTEADIEEAETFDDGEHLRDINTPESLLATKQIAQTLNLAMEELPEELRMAITLR 152

Query: 112 VLEEMRYEDVAVTLGIPVGTVMSRLSRARERLRQSM 147
            +E + Y+++AV++G P+GTV SR+ RARE + + +
Sbjct: 153 EIEGLSYDEIAVSMGCPIGTVRSRIFRAREAISEKL 188


  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
   0.320    0.134    0.381 

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: 296,110
Number of extensions: 10642
Number of successful extensions: 43
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 40
Number of HSP's successfully gapped: 3
Length of query: 164
Length of database: 1,000,347
Length adjustment: 75
Effective length of query: 89
Effective length of database: 753,222
Effective search space: 67036758
Effective search space used: 67036758
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: 125 (52.8 bits)