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 Bl-04  

Data for CP001515  

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: CP001515.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
-------- ----------- ----- ------- ---
CP001515_1016 CDS_1208926-1211481 84.5 5e-25 2
CP001515_1085 CDS_1301596-1302762 47.9 3.1e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001515_1016 1/2 229 296 .. 1 70 [] 69.7 1.1e-20
CP001515_1085 1/1 191 260 .. 1 70 [] 47.9 3.1e-14

Alignments of top-scoring domains:
CP001515_1016: domain 1 of 2, from 229 to 296: score 69.7, E = 1.1e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERaRIAR++HD v+++Ls i++q+++ r+++ + d + ar ++d+i
CP001515_1 229 ERARIARDMHDIVAHTLSIIIIQSDGGRYAA--THDVQLARSTMDTI 273

relarealaevRrllgdLRpaal<-*
r+ a++a+ ++ +llg++ + +
CP001515_1 274 RHEAEHAMHDMKQLLGVFGGSSH 296

CP001515_1085: domain 1 of 1, from 191 to 260: score 47.9, E = 3.1e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIARE+HD vg+ L+ +++ + + + ++ ++ ++ ++++ +
CP001515_1 191 ERTRIAREIHDNVGHLLTRAIMLTNADQVIA--TSTGDtLHADQFGQ 235

irelarealaevRrllgdLR.paal<-*
+ ++++ea++ +R +++L++++++
CP001515_1 236 LGHTLDEAMTMIRKSVHGLKdEGTD 260


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-14 9 0|==
-13 15 0|===
-12 35 17|===*===
-11 68 143|============== *
-10 199 333|======================================== *
-9 285 378|========================================================= *
-8 244 291|================================================= *
-7 182 183|====================================*
-6 159 103|====================*===========
-5 152 55|==========*====================
-4 86 29|=====*============
-3 51 14|==*========
-2 37 7|=*======
-1 11 3|*==
0 7 1|*=
1 11 1|*==
2 5 0|=
3 1 0|=
4 3 0|=
5 2 0|=
6 0 0|
7 0 0|
> 8 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 649.9323
P(chi-square) = 0

Total sequences searched: 1567

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: