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 animalis subsp. lactis BB-12  

Data for CP001853  

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: CP001853.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
-------- ----------- ----- ------- ---
CP001853_1565 CDS_1843398-1846082 84.5 5.3e-25 2
CP001853_1638 CDS_1936083-1937249 47.9 3.2e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001853_1565 1/2 272 339 .. 1 70 [] 69.7 1.2e-20
CP001853_1638 1/1 191 260 .. 1 70 [] 47.9 3.2e-14

Alignments of top-scoring domains:
CP001853_1565: domain 1 of 2, from 272 to 339: score 69.7, E = 1.2e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERaRIAR++HD v+++Ls i++q+++ r+++ + d + ar ++d+i
CP001853_1 272 ERARIARDMHDIVAHTLSIIIIQSDGGRYAA--THDVQLARSTMDTI 316

relarealaevRrllgdLRpaal<-*
r+ a++a+ ++ +llg++ + +
CP001853_1 317 RHEAEHAMHDMKQLLGVFGGSSH 339

CP001853_1638: domain 1 of 1, from 191 to 260: score 47.9, E = 3.2e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIARE+HD vg+ L+ +++ + + + ++ ++ ++ ++++ +
CP001853_1 191 ERTRIAREIHDNVGHLLTRAIMLTNADQVIA--TSTGDtLHADQFGQ 235

irelarealaevRrllgdLR.paal<-*
+ ++++ea++ +R +++L++++++
CP001853_1 236 LGHTLDEAMTMIRKSVHGLKdEGTD 260


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-15 1 0|=
-14 16 0|====
-13 23 0|=====
-12 46 18|===*======
-11 67 150|============== *
-10 199 349|======================================== *
-9 278 396|======================================================== *
-8 247 305|================================================== *
-7 192 192|======================================*
-6 177 108|=====================*==============
-5 168 58|===========*======================
-4 90 30|=====*============
-3 53 15|==*========
-2 36 8|=*======
-1 12 4|*==
0 9 2|*=
1 11 1|*==
2 5 0|=
3 1 0|=
4 3 0|=
5 3 0|=
6 0 0|
7 0 0|
> 8 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 751.9363
P(chi-square) = 0

Total sequences searched: 1642

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: