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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  

2 accessions found for Burkholderia pseudomallei 668  

Data for CP000571  

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: CP000571.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
-------- ----------- ----- ------- ---
CP000571_3232 CDS_3070292-3071692 64.0 1.2e-18 1
CP000571_1623 CDS_1561560-1563602 63.3 1.9e-18 1
CP000571_1921 CDS_1880577-1879099 54.6 6.7e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000571_3232 1/1 253 323 .. 1 70 [] 64.0 1.2e-18
CP000571_1623 1/1 461 537 .. 1 70 [] 63.3 1.9e-18
CP000571_1921 1/1 285 353 .. 1 70 [] 54.6 6.7e-16

Alignments of top-scoring domains:
CP000571_3232: domain 1 of 1, from 253 to 323: score 64.0, E = 1.2e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ERaR+ARELHD+++Q++ ++kl+ e a+ +l + p+++++a++al
CP000571_3 253 ERARLARELHDGISQMMVSAKLMFESALERL--AHLPArenAAQAAL 297

deirelarealaevRrllgdLRpaal<-*
+ + ++l+evRr+ ++LRp+ l
CP000571_3 298 SKGIARLGDTLREVRRISHALRPTML 323

CP000571_1623: domain 1 of 1, from 461 to 537: score 63.3, E = 1.9e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrllds......dkdpe..e
E +RIARELHD +gQ+L+a+k+ +++++ +l ++ +++++++p+ +
CP000571_1 461 EKTRIARELHDDLGQQLTALKMDVSAVAIAL-GryrdtqADAPPiaA 506

arealdeirelarealaevRrllgdLRpaal<-*
++++l+ +r+l++ + a vRr++ dLRp l
CP000571_1 507 VEQQLHGMRRLIDSTVASVRRIAADLRPVML 537

CP000571_1921: domain 1 of 1, from 285 to 353: score 54.6, E = 6.7e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
E +RIARELHD +gQ+L+a+k+ + l+ l kd++ +l
CP000571_1 285 EKTRIARELHDDLGQQLTALKMAVTLVDNEL---KDAGwaSRTSRLP 328

eirelarealaevRrllgdLRpaal<-*
++ +l+ + l+ vRr++ dLRp l
CP000571_1 329 NVYALIGQLLDSVRRIAADLRPVML 353


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 2 0|=
-14 31 0|====
-13 73 0|========
-12 134 36|===*==========
-11 192 300|==================== *
-10 416 697|========================================== *
-9 540 791|====================================================== *
-8 430 610|=========================================== *
-7 408 383|======================================*==
-6 303 217|=====================*=========
-5 309 116|===========*===================
-4 150 60|=====*=========
-3 106 31|===*=======
-2 51 15|=*====
-1 54 8|*=====
0 22 4|*==
1 15 2|*=
2 9 1|*
3 8 0|=
4 6 0|=
5 3 0|=
6 8 0|=
7 0 0|
8 4 0|=
9 1 0|=
> 10 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1543.4384
P(chi-square) = 0

Total sequences searched: 3279

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: