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  

4 accessions found for Yersinia pestis CO92  

Data for AL590842  

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: AL590842.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
-------- ----------- ----- ------- ---
AL590842_1907 CDS_2226026-2224245 71.7 7.7e-21 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AL590842_1907 1/1 392 459 .. 1 70 [] 71.7 7.7e-21

Alignments of top-scoring domains:
AL590842_1907: domain 1 of 1, from 392 to 459: score 71.7, E = 7.7e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER IARELHDs++QsLs +k+q++ +++++ ++ pe ++++
AL590842_1 392 ERSAIARELHDSIAQSLSCLKIQISCLQMQT--PDLPENSNLLIKQM 436

relarealaevRrllgdLRpaal<-*
r+ ++ a++++R+ll+++R
AL590842_1 437 RDELNIAYRQLRELLTTFRLKLN 459


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-14 24 0|==
-13 110 0|========
-12 154 43|===*=======
-11 344 356|=========================*
-10 559 826|======================================== *
-9 773 938|======================================================== *
-8 577 723|========================================== *
-7 464 454|================================*=
-6 349 257|==================*======
-5 242 137|=========*========
-4 117 72|=====*===
-3 65 37|==*==
-2 43 18|=*==
-1 28 9|*=
0 18 4|*=
1 12 2|*
2 2 1|*
3 0 0|
4 2 0|=
> 5 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 653.3382
P(chi-square) = 0

Total sequences searched: 4008

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: