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:
106 projects found  

1 accessions found for Mycobacterium sp. JLS  

Data for CP000580  

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: CP000580.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
-------- ----------- ----- ------- ---
CP000580_1405 CDS_1517282-1518772 117.6 4e-33 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000580_1405 1/1 295 379 .. 1 94 [] 117.6 4e-33

Alignments of top-scoring domains:
CP000580_1405: domain 1 of 1, from 295 to 379: score 117.6, E = 4e-33
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQar++ + e +eaL+Es++RV S
CP000580_1 295 EIHHRVKNNLQTVAALLRLQARRTNNAEG-----REALMESVRRVSS 336

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H+ L++s d + v+++e++++++ + + ++vg i++k
CP000580_1 337 IAQVHDALSMSVD-EEVNLDEVVDRILPIMNDVASVGPP-IRIK--R 379


Histogram of all scores:
score obs exp (one = represents 29 sequences)
----- --- ---
-15 5 0|=
-14 21 0|=
-13 79 35|=*=
-12 351 376|============*
-11 1679 1049|====================================*=====================
-10 1323 1358|==============================================*
-9 876 1147|=============================== *
-8 682 769|======================== *
-7 292 457|=========== *
-6 231 254|========*
-5 80 137|=== *
-4 59 72|==*
-3 30 38|=*
-2 13 19|*
-1 14 10|*
0 1 5|*
1 1 2|*
> 2 2 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 599.3745
P(chi-square) = 0

Total sequences searched: 5739

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: