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
Search:
106 projects found  

1 accessions found for Gardnerella vaginalis 409-05  

Data for CP001849  

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_2.hmm [HisKA_2]
Sequence database: CP001849.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
CP001849_0547 CDS_637179-638663 112.9 1.9e-32 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001849_0547 1/1 292 374 .. 1 94 [] 112.9 1.9e-32

Alignments of top-scoring domains:
CP001849_0547: domain 1 of 1, from 292 to 374: score 112.9, E = 1.9e-32
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ +S+LLrLQark+k+ ev ++ L+E+q+RV++
CP001849_0 292 EIHHRVKNNLQAVSALLRLQARKTKSIEV-----RKELEEAQRRVQT 333

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+Al+HE L+++ d + vdf+ +++ L++ +++++ +++i+ +
CP001849_0 334 IALVHEGLSQTAD-EIVDFDKVISSLLKMSIELASQ-NQNID----I 374


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-15 3 0|=
-14 10 0|==
-13 21 7|=*===
-12 75 82|=============== *
-11 252 230|=============================================*=====
-10 267 297|====================================================== *
-9 235 251|=============================================== *
-8 157 168|================================ *
-7 106 100|===================*==
-6 75 55|==========*====
-5 26 30|=====*
-4 10 15|==*
-3 9 8|=*
-2 3 4|*
-1 0 2|*
0 4 1|*
1 2 0|=
2 0 0|
> 3 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 39.4653
P(chi-square) = 2.104e-05

Total sequences searched: 1258

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: