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:
106 projects found  

1 accessions found for Mycobacterium avium subsp. paratuberculosis K-10  

Data for AE016958  

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: AE016958.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
-------- ----------- ----- ------- ---
AE016958_4318 CDS_4789729-4788509 56.9 1.9e-16 1
AE016958_3270 CDS_3631489-3629834 54.4 1e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE016958_4318 1/1 190 254 .. 1 65 [. 56.9 1.9e-16
AE016958_3270 1/1 357 423 .. 1 70 [] 54.4 1e-15

Alignments of top-scoring domains:
AE016958_4318: domain 1 of 1, from 190 to 254: score 56.9, E = 1.9e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIARE HD++++sLs l++ +arr+l++d+d + a eal+++
AE016958_4 190 ERRRIAREVHDVIAHSLSITLLHVTGARRALRQDRDVDDAVEALEQA 236

relarealaevRrllgdL<-*
++l+r+a+a++Rr++g L
AE016958_4 237 ERLGRQAMADIRRTVGLL 254

AE016958_3270: domain 1 of 1, from 357 to 423: score 54.4, E = 1e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIA +LHD v Q+L+a+ + l++ ++++ +++ e++++l +
AE016958_3 357 ERERIAHDLHDHVIQRLFAAGMDLQGTLARA--RSP--EVADRLNRT 399

relarealaevRrllgdLR.paal<-*
+ +++ ++e+R ++ +LR+paa
AE016958_3 400 LDDLQTIIEEIRTTIFALRsPAAV 423


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-14 2 0|=
-13 18 0|==
-12 68 48|===*==
-11 129 398|========== *
-10 388 925|============================== *
-9 713 1050|======================================================= *
-8 652 809|=================================================== *
-7 656 509|=======================================*===========
-6 542 288|======================*===================
-5 515 154|===========*============================
-4 250 80|======*=============
-3 137 41|===*=======
-2 82 21|=*=====
-1 75 10|*=====
0 44 5|*===
1 27 2|*==
2 21 1|*=
3 11 0|=
4 4 0|=
5 6 0|=
6 1 0|=
7 2 0|=
8 1 0|=
9 0 0|
10 1 0|=
11 1 0|=
12 0 0|
> 13 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 3150.7229
P(chi-square) = 0

Total sequences searched: 4350

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: