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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76 projects found  

3 accessions found for Burkholderia cenocepacia AU 1054  

Data for CP000379  

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: CP000379.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
-------- ----------- ----- ------- ---
CP000379_1009 CDS_1169624-1171726 68.3 4.7e-20 1
CP000379_2181 CDS_2476385-2474943 66.4 1.7e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000379_1009 1/1 487 559 .. 1 70 [] 68.3 4.7e-20
CP000379_2181 1/1 273 343 .. 1 70 [] 66.4 1.7e-19

Alignments of top-scoring domains:
CP000379_1009: domain 1 of 1, from 487 to 559: score 68.3, E = 4.7e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrllds...dkdpeeareal
E +RIARELHD +gQ+L+a+k+ l++++++l+ ++++ ++e ++++l
CP000379_1 487 EKTRIARELHDDLGQQLTALKMDLSVVEQQLRMpgrAQPDESVQTHL 533

deirelarealaevRrllgdLRpaal<-*
+ +r+l++ + a vRr++ dLRp l
CP000379_1 534 QGMRRLIDATVASVRRIAADLRPVML 559

CP000379_2181: domain 1 of 1, from 273 to 343: score 66.4, E = 1.7e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ERaR++RELHD+++Q++ ++kl+le a++++ ++ + +ea++al
CP000379_2 273 ERARLSRELHDGISQMMVSAKLMLESALARF--ERGTSrvpEAEQAL 317

deirelarealaevRrllgdLRpaal<-*
+ + + ++l+evRr+ ++LRp+ l
CP000379_2 318 ASGVGRLGDTLREVRRISHALRPSML 343


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-14 4 0|=
-13 18 0|===
-12 52 27|===*===
-11 81 226|=========== *
-10 260 525|================================= *
-9 457 596|==========================================================*
-8 380 460|================================================ *
-7 348 289|====================================*=======
-6 270 163|====================*=============
-5 234 87|==========*===================
-4 141 45|=====*============
-3 79 23|==*=======
-2 59 12|=*======
-1 35 6|*====
0 22 3|*==
1 6 1|*
2 5 0|=
3 7 0|=
4 3 0|=
5 2 0|=
6 1 0|=
7 3 0|=
8 1 0|=
9 1 0|=
10 0 0|
> 11 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1267.2748
P(chi-square) = 0

Total sequences searched: 2472

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: