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 L20  

Data for CP000569  

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: CP000569.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
-------- ----------- ----- ------- ---
CP000569_0458 CDS_533862-535577 63.4 1.1e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000569_0458 1/1 369 438 .. 1 70 [] 63.4 1.1e-18

Alignments of top-scoring domains:
CP000569_0458: domain 1 of 1, from 369 to 438: score 63.4, E = 1.1e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrllds..dkdpeeareald
ER IARELHDs++QsL+ k+q++l++r + ++d d + ++ l
CP000569_0 369 ERSIIARELHDSLAQSLTFFKIQVSLLKRNGEVkqDWD--KQKAILN 413

eirelarealaevRrllgdLRpaal<-*
+++++ea++++R+ll+++R +++
CP000569_0 414 DFEKALNEAYSQLRELLSTFRLTIE 438


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-14 4 0|=
-13 50 0|=======
-12 83 22|==*========
-11 128 184|================ *
-10 400 427|================================================== *
-9 420 485|===================================================== *
-8 315 374|======================================== *
-7 219 235|============================ *
-6 171 133|================*=====
-5 87 71|========*==
-4 60 37|====*===
-3 31 19|==*=
-2 17 9|=*=
-1 16 4|*=
0 2 2|*
1 3 1|*
2 3 0|=
> 3 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 242.0465
P(chi-square) = 0

Total sequences searched: 2012

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: