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
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Data for CP000479  

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: CP000479.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
-------- ----------- ----- ------- ---
CP000479_4012 CDS_4299455-4297956 123.1 1e-34 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000479_4012 1/1 298 380 .. 1 94 [] 123.1 1e-34

Alignments of top-scoring domains:
CP000479_4012: domain 1 of 1, from 298 to 380: score 123.1, E = 1e-34
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQar+++++e +eaL Es++RV S
CP000479_4 298 EIHHRVKNNLQTVAALLRLQARRTTNPEG-----REALIESVRRVSS 339

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+Al+H+ L++s d ++v+++e++++++ + + ++v++ ++ +
CP000479_4 340 IALVHDALSMSVD-EQVNLDEVIDRILPIMNDVASVDRP---IR--I 380


Histogram of all scores:
score obs exp (one = represents 26 sequences)
----- --- ---
-15 19 0|=
-14 46 0|==
-13 109 32|=*===
-12 359 336|============*=
-11 1494 936|===================================*======================
-10 1133 1211|============================================ *
-9 721 1023|============================ *
-8 638 686|========================= *
-7 257 407|========== *
-6 188 227|========*
-5 63 122|=== *
-4 41 64|==*
-3 26 33|=*
-2 8 17|*
-1 15 9|*
0 0 4|*
1 1 2|*
> 2 2 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 727.0454
P(chi-square) = 0

Total sequences searched: 5120

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: