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)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP001853.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]
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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
-------- ----------- ----- ------- ---
CP001853_1179 CDS_1410547-1412388 79.4 1.5e-22 1
CP001853_1507 CDS_1774515-1775615 63.9 3.8e-18 1
CP001853_0858 CDS_1060427-1061707 57.0 3.3e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001853_1179 1/1 332 401 .. 1 87 [] 79.4 1.5e-22
CP001853_1507 1/1 134 198 .. 1 87 [] 63.9 3.8e-18
CP001853_0858 1/1 174 240 .. 1 87 [] 57.0 3.3e-16

Alignments of top-scoring domains:
CP001853_1179: domain 1 of 1, from 332 to 401: score 79.4, E = 1.5e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHELRTPL+aI gyael ++ ++d++ + e +
CP001853_1 332 KMRQFVSDASHELRTPLAAIHGYAELYKM------QRDAPGTLERA- 371

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ i++++ r+ L++dlL l+r+++g
CP001853_1 372 ----------DDAISHIESSSSRMTVLVEDLLSLARLDEG 401

CP001853_1507: domain 1 of 1, from 134 to 198: score 63.9, E = 3.8e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++++an++HELRTP++a+++++e + +++ e +
CP001853_1 134 LRRDMIANVAHELRTPVSALQAMVENMADGV-----------VEPN- 168

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ e+il +++rl +Li+ lLdlsrieag
CP001853_1 169 ----------EKNMESILAQTHRLTDLISFLLDLSRIEAG 198

CP001853_0858: domain 1 of 1, from 174 to 240: score 57.0, E = 3.3e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+ n+sHEL+TP+ aI+++ae++ + + ++ +
CP001853_0 174 VRRDFVTNVSHELKTPVGAIMLLAETIDD----------AGDDVD-- 208

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++r + +i ea+rl+ L+++l +l r+
CP001853_0 209 --------MIRHFAARIGVEAKRLDGLVRRLIELGRMHGD 240


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-15 3 0|=
-14 9 0|==
-13 40 1|*=======
-12 74 37|=======*=======
-11 151 194|=============================== *
-10 282 361|========================================================= *
-9 290 372|==========================================================*
-8 260 279|==================================================== *
-7 197 175|==================================*=====
-6 136 101|====================*=======
-5 78 55|==========*=====
-4 50 29|=====*====
-3 27 15|==*===
-2 19 8|=*==
-1 9 4|*=
0 8 2|*=
1 2 1|*
2 1 0|=
3 1 0|=
4 1 0|=
5 0 0|
6 0 0|
> 7 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 141.8232
P(chi-square) = 1.782e-25

Total sequences searched: 1642

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: