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:
264 projects found  

1 accessions found for Edwardsiella ictaluri 93-146  

Data for CP001600  

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_3.hmm [HisKA_3]
Sequence database: CP001600.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP001600_1160 CDS_1211770-1210070 67.8 9.8e-20 1
CP001600_3633 CDS_3655715-3654183 56.0 3e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001600_1160 1/1 364 431 .. 1 70 [] 67.8 9.8e-20
CP001600_3633 1/1 309 374 .. 1 70 [] 56.0 3e-16

Alignments of top-scoring domains:
CP001600_1160: domain 1 of 1, from 364 to 431: score 67.8, E = 9.8e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q+L+ +++q+ l+rr + d+++ +a++ ++
CP001600_1 364 ERATIARELHDSLAQALAFLRIQITLLRRTT--DAENHPAQAIIRDF 408

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll ++R +++
CP001600_1 409 DQALSDAYRQLRELLATFRLTIE 431

CP001600_3633: domain 1 of 1, from 309 to 374: score 56.0, E = 3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ IARELHD+vgQ++++i+ q++ +rrl d++ ++ + +++i
CP001600_3 309 TRREIARELHDEVGQTITVIRTQAGIIRRLS--DEP--RLLASAEAI 351

relarealaevRrllgdLRpaal<-*
+ +a + ++ v +ll +L pa l
CP001600_3 352 ENHALRVYDGVHDLLAQLWPASL 374


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-15 2 0|=
-14 97 0|=========
-13 167 0|==============
-12 166 42|===*==========
-11 243 346|===================== *
-10 470 804|======================================== *
-9 689 913|==========================================================*
-8 521 704|============================================ *
-7 402 442|================================== *
-6 323 250|====================*======
-5 338 134|===========*=================
-4 125 70|=====*=====
-3 98 36|==*======
-2 57 18|=*===
-1 25 9|*==
0 25 4|*==
1 11 2|*
2 7 1|*
3 6 0|=
4 5 0|=
5 2 0|=
6 1 0|=
7 1 0|=
> 8 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1224.2561
P(chi-square) = 0

Total sequences searched: 3784

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: