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 Haemophilus somnus 2336  

Data for CP000947  

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: CP000947.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
-------- ----------- ----- ------- ---
CP000947_0474 CDS_559244-557466 62.8 1.6e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000947_0474 1/1 390 462 .. 1 70 [] 62.8 1.6e-18

Alignments of top-scoring domains:
CP000947_0474: domain 1 of 1, from 390 to 462: score 62.8, E = 1.6e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrllds..dkdpeeareald
ER IARELHDs++Q Ls +k+ql l+++ l+++++++ ++ +e ++
CP000947_0 390 ERSIIARELHDSLAQVLSYLKIQLTLLKHTLQQetQDAKAKSQEIIQ 436

eirelarealaevRrllgdLR.paal<-*
++++ ++ ++R+ll ++R + ++
CP000947_0 437 DFEQAVTAGYLQLRELLATFRlTIQE 462


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-14 14 0|==
-13 67 0|=========
-12 91 22|==*=========
-11 181 181|======================*
-10 402 421|=================================================== *
-9 424 478|===================================================== *
-8 259 368|================================= *
-7 196 231|========================= *
-6 146 131|================*==
-5 94 70|========*===
-4 53 36|====*==
-3 23 18|==*
-2 12 9|=*
-1 7 4|*
0 6 2|*
1 2 1|*
> 2 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 277.9482
P(chi-square) = 0

Total sequences searched: 1980

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: