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:
264 projects found  

4 accessions found for Aggregatibacter actinomycetemcomitans D11S-1  

Data for CP001733  

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: CP001733.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
-------- ----------- ----- ------- ---
CP001733_0204 CDS_192165-193868 64.1 6.8e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001733_0204 1/1 364 436 .. 1 70 [] 64.1 6.8e-19

Alignments of top-scoring domains:
CP001733_0204: domain 1 of 1, from 364 to 436: score 64.1, E = 6.8e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe....earea
ER IARELHDs++Q L+ + +ql l+++ l k +++++
CP001733_0 364 ERSIIARELHDSLAQVLAFLQIQLTLLKHNL--NKGETdskqKSLSI 408

ldeirelarealaevRrllgdLR.paal<-*
+++ +++++++++++R+ll ++R + ++
CP001733_0 409 IKQFEQALSDGYSQLRELLATFRlTVQE 436


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 5 0|=
-14 52 0|=======
-13 105 0|==============
-12 121 23|==*=============
-11 153 195|==================== *
-10 408 453|=================================================== *
-9 428 515|====================================================== *
-8 280 397|=================================== *
-7 213 249|=========================== *
-6 141 141|=================*
-5 90 75|=========*==
-4 64 39|====*===
-3 29 20|==*=
-2 19 10|=*=
-1 13 5|*=
0 4 2|*
1 4 1|*
2 2 0|=
3 0 0|
4 1 0|=
> 5 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 504.4951
P(chi-square) = 0

Total sequences searched: 2134

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: