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
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106 projects found  

1 accessions found for Mycobacterium tuberculosis CDC1551  

Data for AE000516  

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: AE000516.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
-------- ----------- ----- ------- ---
AE000516_3333 CDS_3495062-3493326 53.9 1.4e-15 1
AE000516_2145 CDS_2276841-2275120 51.3 8.3e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE000516_3333 1/1 386 452 .. 1 70 [] 53.9 1.4e-15
AE000516_2145 1/1 383 441 .. 1 70 [] 51.3 8.3e-15

Alignments of top-scoring domains:
AE000516_3333: domain 1 of 1, from 386 to 452: score 53.9, E = 1.4e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R RIAR+LHD v Q+L+ai l l++a + ++ ++e++++l +
AE000516_3 386 DRDRIARDLHDHVIQRLFAIGLALQGA--VP--HERNPEVQQRLSDV 428

relarealaevRrllgdLR.paal<-*
+ +++ ++e+R ++ dL++ ++
AE000516_3 429 VDDLQDVIQEIRTTIYDLHgASQG 452

AE000516_2145: domain 1 of 1, from 383 to 441: score 51.3, E = 8.3e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R RIAR+LHD v Q+L+a+ l l++a + r+++ ++
AE000516_2 383 DRDRIARDLHDHVIQRLFAVGLTLQGA-----------APRARVPAV 418

relarealaevRrllgdLRpaal<-*
re + +++++ ++++++R a++
AE000516_2 419 RESIYSSIDDLQEIIQEIRSAIF 441


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-15 1 0|=
-14 10 0|=
-13 54 0|=====
-12 111 46|===*======
-11 187 383|================ *
-10 470 890|======================================== *
-9 689 1011|==========================================================*
-8 642 779|====================================================== *
-7 557 490|========================================*======
-6 470 277|=======================*================
-5 420 148|============*======================
-4 238 77|======*=============
-3 117 39|===*======
-2 88 20|=*======
-1 56 10|*====
0 30 5|*==
1 17 2|*=
2 12 1|*
3 6 0|=
4 5 0|=
5 5 0|=
6 1 0|=
7 0 0|
> 8 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2171.4595
P(chi-square) = 0

Total sequences searched: 4189

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: