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  

3 accessions found for Novosphingobium aromaticivorans DSM 12444  

Data for CP000248  

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: CP000248.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
-------- ----------- ----- ------- ---
CP000248_1233 CDS_1289565-1287922 41.2 6.1e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000248_1233 1/1 350 416 .. 1 70 [] 41.2 6.1e-12

Alignments of top-scoring domains:
CP000248_1233: domain 1 of 1, from 350 to 416: score 41.2, E = 6.1e-12
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ AR+LHDsv+Q L++ le++rr + ++ + + ++d i
CP000248_1 350 VRQAVARDLHDSVAQFLAGTLFRLEALRRWI--REGN-DPEGEIDSI 393

relarealaevRrllgdLRpaal<-*
+ ++r+ + ++R l+++LR +++
CP000248_1 394 KNALRREQGQLRLLIQRLRRGQE 416


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-14 7 0|=
-13 29 0|===
-12 69 37|===*===
-11 115 304|============ *
-10 362 706|===================================== *
-9 586 802|==========================================================*
-8 509 618|=================================================== *
-7 479 388|======================================*=========
-6 353 220|=====================*==============
-5 357 118|===========*========================
-4 168 61|======*==========
-3 113 31|===*========
-2 75 16|=*======
-1 48 8|*====
0 21 4|*==
1 18 2|*=
2 4 1|*
3 5 0|=
4 1 0|=
5 0 0|
6 0 0|
7 1 0|=
8 1 0|=
9 0 0|
> 10 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1773.3606
P(chi-square) = 0

Total sequences searched: 3324

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: