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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Data for CP001096  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_2.hmm [HisKA_2]
Sequence database: CP001096.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
CP001096_2656 CDS_2943184-2942093 109.6 7.1e-31 1
CP001096_1509 CDS_1624174-1624872 60.0 8.8e-17 1
CP001096_3454 CDS_3765522-3764416 56.6 8.4e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001096_2656 1/1 160 243 .. 1 94 [] 109.6 7.1e-31
CP001096_1509 1/1 26 99 .. 1 78 [. 60.0 8.8e-17
CP001096_3454 1/1 167 253 .. 1 94 [] 56.6 8.4e-16

Alignments of top-scoring domains:
CP001096_2656: domain 1 of 1, from 160 to 243: score 109.6, E = 7.1e-31
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HRV N+LQ+I+SLL LQa ++k ev ++aL + +RV++
CP001096_2 160 EVNHRVGNSLQIIASLLHLQASSSKQDEV-----KAALTNAMGRVAA 201

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H++LY+s dl++v + +Yle L+e+L++s+++ + l
CP001096_2 202 VAQVHRRLYTSHDLKSVMLNQYLESLLEDLRRSAEGNRMSR-----L 243

CP001096_1509: domain 1 of 1, from 26 to 99: score 60.0, E = 8.8e-17
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E +HR+ N+LQ+++SL+++++ + d + + L+ + R+++
CP001096_1 26 ECNHRIANSLQMVASLISMESMQLHDDRA-----RRSLEMAGLRIQA 67

mAliHEeLYkse.dldtvdfseYlekLtenLf<-*
+A +H++LY + + d++d+++Yl L+ +L+
CP001096_1 68 IAGVHRRLYSTSlGEDSLDLADYLISLIQELR 99

CP001096_3454: domain 1 of 1, from 167 to 253: score 56.6, E = 8.4e-16
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E +HRVKNNLQ+I++L+rL+ar++ + e+ aL +R+ +
CP001096_3 167 ELQHRVKNNLQLITALIRLEARSAAEGET------VALARLASRIDA 207

mAliHEeLYkse...dldtvdfseYlekLtenLfqsygvgsdgisLklDl
+++ L+ ++ d +++d+++Yl+ +++ +++ + g ++ + +
CP001096_3 208 LTALYRVLSDETpsaDAGQIDLGQYLSDIANAVIRANAAGEINCE----V 253

<-*

CP001096_3 - -


Histogram of all scores:
score obs exp (one = represents 26 sequences)
----- --- ---
-15 15 0|=
-14 34 0|==
-13 116 32|=*===
-12 343 344|=============*
-11 1497 959|====================================*=====================
-10 1129 1241|============================================ *
-9 771 1048|============================== *
-8 592 703|======================= *
-7 306 417|============ *
-6 242 232|========*=
-5 88 125|====*
-4 52 66|==*
-3 31 34|=*
-2 7 18|*
-1 7 9|*
0 4 4|*
1 0 2|*
2 3 1|*
3 0 0|
4 0 0|
> 5 9 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 665.6188
P(chi-square) = 0

Total sequences searched: 5246

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: 22K


Acknowledgements:

This research is funded by:

Developed by: