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 Bifidobacterium dentium Bd1  

Data for CP001750  

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: CP001750.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
-------- ----------- ----- ------- ---
CP001750_0835 CDS_1002849-1004375 127.0 3.2e-36 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001750_0835 1/1 306 389 .. 1 94 [] 127.0 3.2e-36

Alignments of top-scoring domains:
CP001750_0835: domain 1 of 1, from 306 to 389: score 127.0, E = 3.2e-36
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ +S+LLrLQark+k+eev ++ L+E+q+RV++
CP001750_0 306 EIHHRVKNNLQAVSALLRLQARKTKSEEV-----KKELKEAQRRVQT 347

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++HE L+++ d + vd + +++ L++ ++++ ++++i+ +
CP001750_0 348 IAMVHEGLSQTAD-EIVDYDKVISSLLKMAVDLATMRDQHIN----I 389


Histogram of all scores:
score obs exp (one = represents 9 sequences)
----- --- ---
-15 6 0|=
-14 10 0|==
-13 38 13|=*===
-12 109 139|============= *
-11 475 389|===========================================*=========
-10 479 503|====================================================== *
-9 376 425|========================================== *
-8 273 285|===============================*
-7 143 169|================ *
-6 122 94|==========*===
-5 42 50|=====*
-4 25 26|==*
-3 19 14|=*=
-2 5 7|*
-1 2 3|*
0 2 2|*
> 1 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 95.1804
P(chi-square) = 1.599e-15

Total sequences searched: 2129

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: