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 Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)  

Data for CP000488  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_3.hmm [HisKA_3]
Sequence database: CP000488.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP000488_0915 CDS_1085754-1084270 34.9 1.3e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000488_0915 1/1 294 363 .. 1 70 [] 34.9 1.3e-10

Alignments of top-scoring domains:
CP000488_0915: domain 1 of 1, from 294 to 363: score 34.9, E = 1.3e-10
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER +++E+HDs++Q++ ++klq+ ++ +l ++ + a + +
CP000488_0 294 ERLFLSQEIHDSLAQTIYSLKLQVTVLGNML--KTGKKsDASDKVLS 338

irelarealaevRrllgdLR.paal<-*
++ + +a +e+R+l ++R p +
CP000488_0 339 LQSNITQANQELRELMCNFRmPLDP 363


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 15 0|====
-13 51 0|=============
-12 59 10|==*============
-11 129 89|======================*==========
-10 196 207|================================================= *
-9 207 235|==================================================== *
-8 133 181|================================== *
-7 86 114|====================== *
-6 49 64|============= *
-5 27 34|======= *
-4 6 18|== *
-3 10 9|==*
-2 5 4|*=
-1 0 2|*
0 1 1|*
1 0 0|
> 2 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 267.4342
P(chi-square) = 0

Total sequences searched: 976

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: