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:
132 projects found  

6 accessions found for Dinoroseobacter shibae DFL 12  

Data for CP000832  

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: CP000832.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
-------- ----------- ----- ------- ---
CP000832_0043 CDS_44907-43171 93.2 8.7e-28 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000832_0043 1/1 376 464 .. 1 94 [] 93.2 8.7e-28

Alignments of top-scoring domains:
CP000832_0043: domain 1 of 1, from 376 to 464: score 93.2, E = 8.7e-28
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQ+I+S+ ++Q+r ++ +e+ + +L+ q+RV+
CP000832_0 376 EVHHRVKNNLQMIASIMNMQSRTVTAPET-----KRVLQGLQRRVQG 417

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
A iH+ LY++ ++ vd+++ ++++++ ++g g+ + ++ Dl
CP000832_0 418 LAAIHRTLYTTTEMTCVDVAALADEMVSEVAALAGQGARAVTVRRDL 464


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-14 1 0|=
-13 5 0|=====
-12 11 8|=======*===
-11 27 25|========================*==
-10 38 32|===============================*======
-9 17 27|================= *
-8 15 18|=============== *
-7 14 10|=========*====
-6 4 6|==== *
-5 2 3|==*
-4 0 1|*
-3 1 0|=
-2 0 0|
-1 0 0|
> 0 2 -|==


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 6.9864
P(chi-square) = 0.2217

Total sequences searched: 137

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: