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  

1 accessions found for Actinobacillus pleuropneumoniae serovar 3 str. JL03  

Data for CP000687  

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: CP000687.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
-------- ----------- ----- ------- ---
CP000687_0464 CDS_540790-542505 61.3 4.5e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000687_0464 1/1 369 438 .. 1 70 [] 61.3 4.5e-18

Alignments of top-scoring domains:
CP000687_0464: domain 1 of 1, from 369 to 438: score 61.3, E = 4.5e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrllds..dkdpeeareald
ER IARELHDs++QsL+ k+q++l++r + ++d d + + l
CP000687_0 369 ERSIIARELHDSLAQSLTFFKIQVSLLKRNGEVkqDWD--KQKVILN 413

eirelarealaevRrllgdLRpaal<-*
+++++ea++++R+ll+++R +++
CP000687_0 414 DFEKALNEAYSQLRELLSTFRLTIE 438


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-14 20 0|===
-13 65 0|=========
-12 84 22|==*========
-11 127 186|================ *
-10 399 432|================================================== *
-9 435 491|======================================================= *
-8 319 378|======================================== *
-7 207 238|========================== *
-6 161 134|================*====
-5 85 72|========*==
-4 59 37|====*===
-3 29 19|==*=
-2 19 9|=*=
-1 15 5|*=
0 3 2|*
1 3 1|*
2 3 0|=
> 3 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 258.7207
P(chi-square) = 0

Total sequences searched: 2036

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: