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:
132 projects found  

1 accessions found for Oligotropha carboxidovorans OM5  

Data for CP001196  

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_2.hmm [HisKA_2]
Sequence database: CP001196.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]
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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
-------- ----------- ----- ------- ---
CP001196_1944 CDS_1899136-1898048 110.2 3.3e-31 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001196_1944 1/1 161 244 .. 1 94 [] 110.2 3.3e-31

Alignments of top-scoring domains:
CP001196_1944: domain 1 of 1, from 161 to 244: score 110.2, E = 3.3e-31
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HRV N+LQ+I+SLL LQa ++ d +v ++aL + +RV++
CP001196_1 161 EVNHRVGNSLQIIASLLHLQASSTNDDDV-----KAALTSAMGRVAA 202

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H++LY+s dl++v + +Yle L+e+L++s ++ + l
CP001196_1 203 VAQVHRRLYTSHDLKSVMLNQYLEALLEDLRRSTEGNRMSR-----L 244


Histogram of all scores:
score obs exp (one = represents 18 sequences)
----- --- ---
-15 21 0|==
-14 53 0|===
-13 133 23|=*======
-12 300 244|=============*===
-11 1009 680|=====================================*===================
-10 735 880|========================================= *
-9 589 743|================================= *
-8 378 499|===================== *
-7 206 296|============ *
-6 166 165|=========*
-5 51 88|=== *
-4 33 47|==*
-3 22 24|=*
-2 11 12|*
-1 5 6|*
0 2 3|*
1 1 1|*
2 3 0|=
> 3 4 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 822.2399
P(chi-square) = 0

Total sequences searched: 3722

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: