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 Rothia mucilaginosa  

Data for AP011540  

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: AP011540.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
-------- ----------- ----- ------- ---
AP011540_0679 CDS_722341-723915 90.9 5.6e-26 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP011540_0679 1/1 317 382 .. 1 72 [. 90.9 5.6e-26

Alignments of top-scoring domains:
AP011540_0679: domain 1 of 1, from 317 to 382: score 90.9, E = 5.6e-26
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++S+LLrLQ+r+ + e+ + L+ + +RV++
AP011540_0 317 EIHHRVKNNLQTVSALLRLQSRRMTTDEA-----RQGLEQAMRRVAT 358

mAliHEeLYksedldtvdfseYlek<-*
+A++HE L+++ +vdf+e +e+
AP011540_0 359 IATVHEALSQGLT-QNVDFDELIER 382


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 1 0|=
-14 6 0|=
-13 36 12|=*===
-12 97 130|============= *
-11 437 364|=============================================*=========
-10 429 471|====================================================== *
-9 328 398|========================================= *
-8 279 267|=================================*=
-7 138 158|================== *
-6 144 88|==========*=======
-5 41 47|=====*
-4 31 25|===*
-3 7 13|=*
-2 9 6|*=
-1 3 3|*
0 2 1|*
1 1 0|=
2 0 0|
3 1 0|=
> 4 2 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 127.8868
P(chi-square) = 4.657e-22

Total sequences searched: 1992

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: