Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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76 projects found  

2 accessions found for Variovorax paradoxus S110  

Data for CP001636  

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: CP001636.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
-------- ----------- ----- ------- ---
CP001636_0246 CDS_260736-262598 55.1 1.5e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001636_0246 1/1 419 486 .. 1 70 [] 55.1 1.5e-16

Alignments of top-scoring domains:
CP001636_0246: domain 1 of 1, from 419 to 486: score 55.1, E = 1.5e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER R+AR LHD++++s+ a+ + ++++l+ p+++ +l ++
CP001636_0 419 ERLRLARGLHDTLAHSMMAMLTEIRVLKHLA--SNRPDALPNELVRA 463

relarealaevRrllgdLRpaal<-*
+++ar++l+e+Rr++ +LR
CP001636_0 464 ERAARDGLDEARRAIDQLRSNPV 486


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-14 2 0|=
-13 10 0|====
-12 10 11|===*
-11 37 95|============= *
-10 108 220|==================================== *
-9 165 250|======================================================= *
-8 160 193|====================================================== *
-7 158 121|========================================*============
-6 127 68|======================*====================
-5 113 36|===========*==========================
-4 51 19|======*==========
-3 35 9|==*=========
-2 20 5|=*=====
-1 19 2|*======
0 9 1|*==
1 6 0|==
2 4 0|==
3 1 0|=
> 4 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 506.0580
P(chi-square) = 0

Total sequences searched: 1038

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: