bitscore colors: <40, 40-50 , 50-80, 80-200, >200

           BLASTP 2.2.30+


Reference: Stephen F. Altschul, 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 composition-based statistics: Alejandro A. Schaffer,
L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri
I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001),
"Improving the accuracy of PSI-BLAST protein database searches with
composition-based statistics and other refinements", Nucleic Acids
Res. 29:2994-3005.



Database: all_orgs
           14,240,465 sequences; 5,121,972,263 total letters





Query= Contig-11_CDS_annotation_glimmer3.pl_2_7

Length=44
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  goh:B932_2363  RNA polymerase sigma-32 subunit RpoH                 32.7    2.9


> goh:B932_2363  RNA polymerase sigma-32 subunit RpoH
Length=728

 Score = 32.7 bits (73),  Expect = 2.9, Method: Composition-based stats.
 Identities = 19/41 (46%), Positives = 27/41 (66%), Gaps = 2/41 (5%)

Query  4    VININEVVNTNLDADSSQASIAGKGISSNSGHTLTYDCGAE  44
            V++ NE  + NLD   S A IAG+GI S++  ++T D GAE
Sbjct  199  VVSDNEAGDWNLDL--SPAPIAGEGIGSDTCTSITIDYGAE  237



Lambda      K        H        a         alpha
   0.308    0.125    0.335    0.792     4.96 

Gapped
Lambda      K        H        a         alpha    sigma
   0.267   0.0410    0.140     1.90     42.6     43.6 

Effective search space used: 126506741218