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 Pseudomonas syringae pv. tomato str. DC3000  

Data for AE016853  

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/HWE_HK.hmm [HWE_HK]
Sequence database: AE016853.Gprot.fsa
per-sequence score cutoff: >= 60.0 [TC1]
per-domain score cutoff: >= 60.0 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HWE_HK
Accession: PF07536.4
Description: HWE 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
-------- ----------- ----- ------- ---
AE016853_2599 CDS_2946692-2943711 114.1 1.4e-38 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE016853_2599 1/1 806 881 .. 1 85 [] 114.1 1.4e-38

Alignments of top-scoring domains:
AE016853_2599: domain 1 of 1, from 806 to 881: score 114.1, E = 1.4e-38
*->ELnHRVKNtLAvVQSiarQTlRnaasldefveaFsgRLqALsraHdL
ELnHRVKNtLA+VQ+ia T+++++sld+f+ +F++RL ALs
AE016853_2 806 ELNHRVKNTLATVQAIASLTVNSSTSLDSFRKSFDARLFALS----- 847

VpLtrseWagAdLreLleaeLaPyggedaeRitlsGPd<-*
r+eW++ +L++Ll++ + gg ++Rit++G++
AE016853_2 848 --QARAEWMSTELADLLAQLQDVNGG--QHRITFTGDP 881


Histogram of all scores:
score obs exp (one = represents 18 sequences)
----- --- ---
-16 2 0|=
-15 1 0|=
-14 23 0|==
-13 110 0|=======
-12 445 0|=========================
-11 601 44|==*===============================
-10 820 566|===============================*==============
-9 944 1401|===================================================== *
-8 1034 1455|==========================================================*
-7 590 977|================================= *
-6 343 533|==================== *
-5 283 264|==============*=
-4 113 125|======*
-3 75 58|===*=
-2 38 26|=*=
-1 23 12|*=
0 22 5|*=
1 4 2|*
2 3 1|*
3 0 0|
> 4 2 -|=


% Statistical details of theoretical EVD fit:
mu = -7.9989
lambda = 0.7843
chi-sq statistic = 7590.0327
P(chi-square) = 0

Total sequences searched: 5476

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: