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  

1 accessions found for Orientia tsutsugamushi str. Boryong  

Data for AM494475  

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_1.hmm [HisKA]
Sequence database: AM494475.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
AM494475_0907 CDS_883451-884998 73.5 9.5e-21 1
AM494475_1269 CDS_1234257-1232671 43.9 2.2e-12 1
AM494475_1379 CDS_1341886-1345143 40.4 2.2e-11 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM494475_0907 1/1 290 356 .. 1 87 [] 73.5 9.5e-21
AM494475_1269 1/1 297 367 .. 1 87 [] 43.9 2.2e-12
AM494475_1379 1/1 700 769 .. 1 87 [] 40.4 2.2e-11

Alignments of top-scoring domains:
AM494475_0907: domain 1 of 1, from 290 to 356: score 73.5, E = 9.5e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak++flan+sHELRTPL+aI+g++e++l ++ +
AM494475_0 290 AKNKFLANVSHELRTPLSAIIGLTEIILS------------NSHCK- 323

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y y++ i++++++ll+ ind+Ld+s++ a+
AM494475_0 324 -------INYYNYIRDIHNSGKHLLAVINDILDFSKASAN 356

AM494475_1269: domain 1 of 1, from 297 to 367: score 43.9, E = 2.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
s+ ++ ++HE+++PLt I++ a++L +++ ++ ++
AM494475_1 297 VWSDIARKVAHEINNPLTPIQLSASMLADKF-------GKEVSDP-- 334

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +yl+ti r a+ + +i ++ d+++i +
AM494475_1 335 -------IMFTKYLNTISRHAKDIKTIIKEFADFAKIPVP 367

AM494475_1379: domain 1 of 1, from 700 to 769: score 40.4, E = 2.2e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k e l +lsHE RTPL +++ ++lL + + e s ++l
AM494475_1 700 IKKEILNHLSHEVRTPLQGVKSCIDLLIK-------HCNEYSNSEQL 739

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++++ +++er + i++lLdls+iea+
AM494475_1 740 ----------LGIVNRVNSSVERVCNHIDNLLDLSKIEAN 769


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-15 2 0|=
-14 9 0|===
-13 29 0|========
-12 90 27|======*================
-11 161 140|==================================*======
-10 215 259|====================================================== *
-9 216 268|====================================================== *
-8 144 200|==================================== *
-7 130 126|===============================*=
-6 73 72|=================*=
-5 35 39|=========*
-4 34 21|=====*===
-3 21 11|==*===
-2 7 5|=*
-1 10 3|*==
0 0 1|*
1 0 0|
> 2 6 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 200.7528
P(chi-square) = 1.124e-37

Total sequences searched: 2179

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: