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:
76 projects found  

1 accessions found for Laribacter hongkongensis HLHK9  

Data for CP001154  

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: CP001154.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
-------- ----------- ----- ------- ---
CP001154_2065 CDS_1965163-1963250 72.5 3.6e-21 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001154_2065 1/1 433 501 .. 1 70 [] 72.5 3.6e-21

Alignments of top-scoring domains:
CP001154_2065: domain 1 of 1, from 433 to 501: score 72.5, E = 3.6e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ +A+ LHDs++QsLs ++lq+++++ +l+ + + e+a+e l+ i
CP001154_2 433 ERNLMAQGLHDSIAQSLSFLNLQVQMLESALE-AGESEAAQENLAFI 478

relarealaevRrllgdLRpaal<-*
re + e++++vR+ll ++R+ +
CP001154_2 479 REGVAECYEDVRELLLNFRTRIS 501


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-14 37 0|====
-13 103 0|===========
-12 129 36|===*=========
-11 162 296|================= *
-10 417 688|========================================== *
-9 533 781|====================================================== *
-8 438 602|============================================ *
-7 408 378|=====================================*===
-6 326 214|=====================*===========
-5 282 115|===========*=================
-4 142 60|=====*=========
-3 84 30|==*======
-2 59 15|=*====
-1 44 8|*====
0 26 4|*==
1 21 2|*==
2 8 1|*
3 4 0|=
4 4 0|=
5 5 0|=
6 1 0|=
7 0 0|
8 1 0|=
9 1 0|=
10 1 0|=
> 11 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1316.2495
P(chi-square) = 0

Total sequences searched: 3238

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: