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  

3 accessions found for Vibrio fischeri MJ11  

Data for CP001133  

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: CP001133.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
-------- ----------- ----- ------- ---
CP001133_0065 CDS_72005-70683 58.5 1.9e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001133_0065 1/1 290 355 .. 1 70 [] 58.5 1.9e-17

Alignments of top-scoring domains:
CP001133_0065: domain 1 of 1, from 290 to 355: score 58.5, E = 1.9e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ IARELHD++gQ+++ai+ q++ ++r+ +++ + + +d+i
CP001133_0 290 VRRDIARELHDEIGQNITAIRTQASIIKRID--AAE--MSVRCADTI 332

relarealaevRrllgdLRpaal<-*
++l+ ++ + rll+ LRp l
CP001133_0 333 ETLSLNVYDTTKRLLTKLRPKML 355


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-15 2 0|=
-14 19 0|====
-13 59 0|============
-12 98 14|==*=================
-11 94 114|=================== *
-10 269 266|=====================================================*
-9 269 302|====================================================== *
-8 190 233|====================================== *
-7 106 146|====================== *
-6 53 83|=========== *
-5 43 44|========*
-4 16 23|====*
-3 12 11|==*
-2 6 6|=*
-1 8 3|*=
0 4 1|*
1 1 0|=
2 1 0|=
3 2 0|=
> 4 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 543.8350
P(chi-square) = 0

Total sequences searched: 1254

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: