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 Thioalkalivibrio sp. HL-EbGR7  

Data for CP001339  

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: CP001339.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
-------- ----------- ----- ------- ---
CP001339_2145 CDS_2302481-2304133 52.4 3e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001339_2145 1/1 332 399 .. 1 70 [] 52.4 3e-15

Alignments of top-scoring domains:
CP001339_2145: domain 1 of 1, from 332 to 399: score 52.4, E = 3e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+++A ELHDs++Q+L+ ++ + ++ + +++ +e r+++d+i
CP001339_2 332 ERTHLAHELHDSLAQTLATLRFRVRALDETA--QDASAETRREIDQI 376

relarealaevRrllgdLRpaal<-*
++ +++a e+R+l++++R + +
CP001339_2 377 KDVLNRANVELRALISHFRAPME 399


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 1 0|=
-14 10 0|=
-13 30 0|===
-12 58 36|===*==
-11 104 300|=========== *
-10 391 698|======================================== *
-9 549 792|======================================================= *
-8 459 611|============================================== *
-7 413 384|======================================*===
-6 393 217|=====================*==================
-5 341 116|===========*=======================
-4 171 60|=====*============
-3 112 31|===*========
-2 95 16|=*========
-1 69 8|*======
0 32 4|*===
1 21 2|*==
2 10 1|*
3 5 0|=
4 7 0|=
5 5 0|=
6 3 0|=
> 7 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2216.8333
P(chi-square) = 0

Total sequences searched: 3283

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: