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 Mannheimia succiniciproducens MBEL55E  

Data for AE016827  

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_3.hmm [HisKA_3]
Sequence database: AE016827.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]
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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
-------- ----------- ----- ------- ---
AE016827_2288 CDS_2217301-2219058 63.8 9.6e-19 1
AE016827_2286 CDS_2214513-2216024 42.8 1.5e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE016827_2288 1/1 382 454 .. 1 70 [] 63.8 9.6e-19
AE016827_2286 1/1 303 367 .. 2 70 .] 42.8 1.5e-12

Alignments of top-scoring domains:
AE016827_2288: domain 1 of 1, from 382 to 454: score 63.8, E = 9.6e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe....earea
ER IARELHDs++Q L+ + +ql l+++ l kd+++ +++
AE016827_2 382 ERSIIARELHDSLAQVLAFLQIQLTLLKHNL--NKDDDkakrQSLLI 426

ldeirelarealaevRrllgdLR.paal<-*
++ ++++++++ ++R+ll ++R + ++
AE016827_2 427 IKDFEQALSDGYIQLRELLATFRlTVQE 454

AE016827_2286: domain 1 of 1, from 303 to 367: score 42.8, E = 1.5e-12
*->RaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdeir
R+ I+RELHD++gQ+++ai+ q++ +rl +++ ++++ +i+
AE016827_2 303 RKEISRELHDEIGQNITAIRTQASIMKRLE--TSP--KIEKVGSMIE 345

elarealaevRrllgdLRpaal<-*
+l+ ++ + ll ++Rp l
AE016827_2 346 QLSLNIYDTTKGLLNRIRPKML 367


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 4 0|=
-14 75 0|==========
-13 161 0|=====================
-12 122 26|===*============
-11 173 218|====================== *
-10 413 506|==================================================== *
-9 468 575|==========================================================*
-8 313 443|======================================== *
-7 239 278|============================== *
-6 154 157|===================*
-5 111 84|==========*===
-4 71 44|=====*===
-3 36 22|==*==
-2 19 11|=*=
-1 11 5|*=
0 8 3|*
1 2 1|*
2 0 0|
3 0 0|
4 1 0|=
> 5 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 474.1907
P(chi-square) = 0

Total sequences searched: 2384

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: