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:
76 projects found  

4 accessions found for Burkholderia sp. CCGE1002  

Data for CP002015  

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: CP002015.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
-------- ----------- ----- ------- ---
CP002015_1095 CDS_1263263-1264846 80.9 4e-24 1
CP002015_0513 CDS_589459-590559 59.5 8.1e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP002015_1095 1/1 326 392 .. 1 70 [] 80.9 4e-24
CP002015_0513 1/1 163 232 .. 1 70 [] 59.5 8.1e-18

Alignments of top-scoring domains:
CP002015_1095: domain 1 of 1, from 326 to 392: score 80.9, E = 4e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIA E+HD++gQ L+a+k+ ++l+++++ + dp ea + +d +
CP002015_1 326 ERKRIAMEIHDELGQLLTALKMDVSLLKMRI--AHDP-EASKKADDM 369

relarealaevRrllgdLRpaal<-*
r+l++ +++ vR+++++LRpaal
CP002015_1 370 RQLVEGTISMVRNVASHLRPAAL 392

CP002015_0513: domain 1 of 1, from 163 to 232: score 59.5, E = 8.1e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrllds.dkdpeearealde
E +RIARELHD +gQ+L+a+k+ + l+++ l ++++d e+++++ +e
CP002015_0 163 EQKRIARELHDDLGQRLTALKMSVALLEAKL-NkQADTEPLAAQTQE 208

irelarealaevRrllgdLRpaal<-*
+++ ++ a +Rr++ dLRp+ l
CP002015_0 209 LQKQIDWMAASLRRIAADLRPPLL 232


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 1 0|=
-13 14 0|====
-12 34 12|==*======
-11 46 101|============ *
-10 121 235|=============================== *
-9 213 267|====================================================== *
-8 162 206|========================================= *
-7 153 129|================================*======
-6 110 73|==================*=========
-5 97 39|=========*===============
-4 55 20|====*=========
-3 37 10|==*=======
-2 24 5|=*====
-1 15 2|*===
0 9 1|*==
1 6 0|==
2 4 0|=
3 3 0|=
4 1 0|=
5 1 0|=
6 0 0|
> 7 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 439.1590
P(chi-square) = 0

Total sequences searched: 1109

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: