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  

4 accessions found for Agrobacterium tumefaciens str. C58  

Data for AE007869  

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_2.hmm [HisKA_2]
Sequence database: AE007869.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
AE007869_1917 CDS_1950104-1949064 99.7 2.4e-28 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE007869_1917 1/1 151 232 .. 1 94 [] 99.7 2.4e-28

Alignments of top-scoring domains:
AE007869_1917: domain 1 of 1, from 151 to 232: score 99.7, E = 2.4e-28
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HRV N+L ++S+++rLQ +k++e+ aL E+q+R+ +
AE007869_1 151 EMNHRVANSLSLVSAMIRLQINTVKSQEA-----ETALLETQSRISA 192

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A +H+ LY + +++ v +s+Yl+ ++++Lfq+ ++s+ +
AE007869_1 193 IAGVHRSLYNTANVGLVSLSSYLTSIISDLFQAVPGSSS-------V 232


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-15 4 0|=
-14 23 0|==
-13 33 17|=*=
-12 156 178|============ *
-11 710 497|======================================*================
-10 635 644|=================================================*
-9 456 544|==================================== *
-8 286 365|====================== *
-7 175 216|============== *
-6 131 120|=========*=
-5 44 65|====*
-4 25 34|==*
-3 22 18|=*
-2 10 9|*
-1 4 4|*
0 2 2|*
1 2 1|*
> 2 4 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 159.0009
P(chi-square) = 2.144e-28

Total sequences searched: 2722

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: