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:
39 projects found  

1 accessions found for Synechococcus sp. JA-3-3Ab  

Data for CP000239  

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: CP000239.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
-------- ----------- ----- ------- ---
CP000239_2743 CDS_2906293-2903225 145.3 2.5e-41 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000239_2743 1/1 828 912 .. 1 94 [] 145.3 2.5e-41

Alignments of top-scoring domains:
CP000239_2743: domain 1 of 1, from 828 to 912: score 145.3, E = 2.5e-41
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ+ISSLLrLQa+++k+ + +++++ +R+++
CP000239_2 828 EIHHRVKNNLQIISSLLRLQADQIKSHKY-----ARVFKDAGSRIQA 869

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
m+liHE LY+s +l vd+++Yl +L++nLf+sygv + i+
CP000239_2 870 MSLIHEGLYQSNNLAAVDLRQYLHNLISNLFHSYGVNPEIIR----A 912


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-15 23 0|==
-14 39 0|===
-13 71 17|=*====
-12 211 181|=============*===
-11 765 504|======================================*====================
-10 514 653|======================================== *
-9 449 551|=================================== *
-8 296 370|======================= *
-7 165 219|============= *
-6 132 122|=========*=
-5 46 65|====*
-4 21 34|==*
-3 14 18|=*
-2 5 9|*
-1 3 4|*
0 2 2|*
> 1 4 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 398.8807
P(chi-square) = 0

Total sequences searched: 2760

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: