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:
14 projects found  

3 accessions found for Herpetosiphon aurantiacus ATCC 23779  

Data for CP000875  

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: CP000875.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
-------- ----------- ----- ------- ---
CP000875_0982 CDS_1133131-1130513 126.6 1e-35 1
CP000875_3215 CDS_4089256-4091166 66.5 1.2e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000875_0982 1/1 683 768 .. 1 94 [] 126.6 1e-35
CP000875_3215 1/1 439 490 .. 1 56 [. 66.5 1.2e-18

Alignments of top-scoring domains:
CP000875_0982: domain 1 of 1, from 683 to 768: score 126.6, E = 1e-35
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++SSLL+LQar+++d+++ ++ + Esq+R+ +
CP000875_0 683 EIHHRVKNNLQIVSSLLNLQARQISDPNT-----RDRFLESQSRIHA 724

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
mAl+HE+LY+s dl +d++eY++ L+ ++s++ + +s++ +
CP000875_0 725 MALVHEQLYRSSDLRYIDLAEYIKHLVQFFRRSHTNRPT-LSIN--I 768

CP000875_3215: domain 1 of 1, from 439 to 490: score 66.5, E = 1.2e-18
*->EIHHRVKNNLQvISSLLrLQarkfkde.evikdEVleaLrEsqnRVl
EIHHRV+NNLQ+IS+LL +Qar+ e+e + aL +s++R+
CP000875_3 439 EIHHRVRNNLQTISALLQMQARRLNTEtEG-----RQALDDSVRRIH 480

SmAliHEeLY<-*
++A +H+ L+
CP000875_3 481 AIAAVHNLLS 490


Histogram of all scores:
score obs exp (one = represents 22 sequences)
----- --- ---
-15 3 0|=
-14 15 0|=
-13 54 31|=*=
-12 244 326|============ *
-11 1261 910|=========================================*================
-10 1106 1177|=================================================== *
-9 859 994|======================================== *
-8 570 667|========================== *
-7 309 396|=============== *
-6 307 220|=========*====
-5 101 118|=====*
-4 62 62|==*
-3 40 33|=*
-2 11 17|*
-1 15 8|*
0 7 4|*
1 4 2|*
2 2 1|*
3 1 0|=
4 0 0|
5 1 0|=
> 6 4 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 273.5423
P(chi-square) = 0

Total sequences searched: 4976

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: