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:
106 projects found  

1 accessions found for Frankia sp. CcI3  

Data for CP000249  

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: CP000249.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
-------- ----------- ----- ------- ---
CP000249_3716 CDS_4509889-4508354 109.2 7.8e-31 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000249_3716 1/1 317 385 .. 1 75 [. 109.2 7.8e-31

Alignments of top-scoring domains:
CP000249_3716: domain 1 of 1, from 317 to 385: score 109.2, E = 7.8e-31
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQ r++k e+ + aLrEs++RV S
CP000249_3 317 EIHHRVKNNLQTVAALLRLQMRRTKVDEA-----RSALRESVRRVTS 358

mAliHEeLYksedldtvdfseYlekLte<-*
+A +HE L++s + ++v f+e + +t+
CP000249_3 359 IAVVHETLSQSLG-ESVPFDEIADQITS 385


Histogram of all scores:
score obs exp (one = represents 23 sequences)
----- --- ---
-15 5 0|=
-14 22 0|=
-13 82 28|=*==
-12 276 295|============*
-11 1328 822|===================================*======================
-10 1019 1064|============================================= *
-9 654 899|============================= *
-8 504 603|====================== *
-7 230 358|========== *
-6 228 199|========*=
-5 59 107|=== *
-4 45 56|==*
-3 21 29|=*
-2 8 15|*
-1 12 8|*
0 1 4|*
1 2 2|*
> 2 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 582.1380
P(chi-square) = 0

Total sequences searched: 4499

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: