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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
132 projects found  

7 accessions found for Rhizobium etli CFN 42  

Data for CP000138  

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: CP000138.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
-------- ----------- ----- ------- ---
CP000138_0065 CDS_65634-64261 102.3 9e-30 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000138_0065 1/1 266 350 .. 1 94 [] 102.3 9e-30

Alignments of top-scoring domains:
CP000138_0065: domain 1 of 1, from 266 to 350: score 102.3, E = 9e-30
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+ HRVKN+L +++++L +Qar++k eev aLr+++ RV +
CP000138_0 266 EMSHRVKNSLGLVAAMLAMQARSTKQEEV-----GQALRDAEARVGT 307

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H++L++ d++tvd++++l+ L+ L qs ++ + ++
CP000138_0 308 IAQVHDQLWRQPDIETVDLADFLSSLCQRLQQSTSRHAVTVD----A 350


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-14 1 0|=
-13 4 3|*=
-12 17 37|====== *
-11 147 103|==================================*==============
-10 141 134|============================================*==
-9 109 113|=====================================*
-8 58 76|==================== *
-7 31 45|=========== *
-6 31 25|========*==
-5 15 13|====*
-4 4 7|==*
-3 4 3|*=
-2 2 1|*
-1 1 1|*
0 0 0|
> 1 2 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 39.8258
P(chi-square) = 1.359e-06

Total sequences searched: 573

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: