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 CP000830  

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: CP000830.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
-------- ----------- ----- ------- ---
CP000830_2331 CDS_2477127-2478569 76.9 2e-22 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000830_2331 1/1 263 330 .. 1 70 [] 76.9 2e-22

Alignments of top-scoring domains:
CP000830_2331: domain 1 of 1, from 263 to 330: score 76.9, E = 2e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER R ARELHDs++Q L +i+ lelarr++ ++ +++a+e ++
CP000830_2 263 ERGRVARELHDSISQLLVGIRYALELARRRV--QTGDARAQENIEKG 307

relarealaevRrllgdLRpaal<-*
+ ++ a++evRr+ +dLRp++l
CP000830_2 308 IDGLNGAIQEVRRISRDLRPGQL 330


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 5 0|=
-13 19 0|==
-12 78 39|===*===
-11 145 327|============= *
-10 419 760|=================================== *
-9 658 863|======================================================= *
-8 561 665|=============================================== *
-7 505 418|==================================*========
-6 367 236|===================*===========
-5 323 127|==========*================
-4 207 66|=====*============
-3 114 34|==*=======
-2 64 17|=*====
-1 44 8|*===
0 24 4|*=
1 9 2|*
2 12 1|*
3 7 0|=
4 4 0|=
5 6 0|=
6 1 0|=
7 0 0|
8 0 0|
9 1 0|=
10 1 0|=
11 1 0|=
12 0 0|
> 13 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1497.7051
P(chi-square) = 0

Total sequences searched: 3577

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: