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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
264 projects found  

1 accessions found for Moraxella catarrhalis RH4  

Data for CP002005  

Available Atlases
Other Plots
hmmsearch - search a sequence database with a profile HMM
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_3.hmm [HisKA_3]
Sequence database: CP002005.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP002005_0758 CDS_772540-770570 55.4 2.2e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP002005_0758 1/1 436 518 .. 1 70 [] 55.4 2.2e-16

Alignments of top-scoring domains:
CP002005_0758: domain 1 of 1, from 436 to 518: score 55.4, E = 2.2e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.........
ER+ IARELHDs++QsLs +k+ql+++ +++ + + +++++++
CP002005_0 436 ERNTIARELHDSLAQSLSYLKIQLSMLGTHA--RQLSDaaqqnqndt 480

......earealdeirelarealaevRrllgdLRpaal<-*
+++++ + l ++r ++ a+ ++R+ll ++R ++
CP002005_0 481 lmdhneAMLQVLGQARSGLDAAYIQLRELLVTFRLKIE 518


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 14 0|===
-14 104 0|==================
-13 128 0|======================
-12 110 21|===*===============
-11 139 172|======================== *
-10 339 401|========================================================= *
-9 347 455|==========================================================*
-8 219 351|===================================== *
-7 197 220|================================= *
-6 112 124|=================== *
-5 77 66|==========*==
-4 44 34|=====*==
-3 16 17|==*
-2 15 9|=*=
-1 14 4|*==
0 5 2|*
1 3 1|*
2 1 0|=
3 0 0|
4 0 0|
> 5 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 478.7632
P(chi-square) = 0

Total sequences searched: 1886

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: