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
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264 projects found  

1 accessions found for Shigella flexneri 2a str. 2457T  

Data for AE014073  

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: AE014073.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
-------- ----------- ----- ------- ---
AE014073_1176 CDS_1273145-1271349 82.2 6e-24 1
AE014073_3415 CDS_3872000-3870498 63.7 1.8e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE014073_1176 1/1 390 458 .. 1 70 [] 82.2 6e-24
AE014073_3415 1/1 304 370 .. 1 70 [] 63.7 1.8e-18

Alignments of top-scoring domains:
AE014073_1176: domain 1 of 1, from 390 to 458: score 82.2, E = 6e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
AE014073_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
AE014073_1 435 RNELNASWAQLRELLTTFRlQLTE 458

AE014073_3415: domain 1 of 1, from 304 to 370: score 63.7, E = 1.8e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
AE014073_3 304 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 347

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
AE014073_3 348 EQLSLGVYDAVRRLLGRLRPRQL 370


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-16 2 0|=
-15 1 0|=
-14 19 0|==
-13 94 0|========
-12 230 45|===*==============
-11 256 372|==================== *
-10 590 865|============================================== *
-9 750 982|==========================================================*
-8 726 757|======================================================== *
-7 482 476|====================================*=
-6 322 269|====================*====
-5 287 144|===========*===========
-4 140 75|=====*=====
-3 69 38|==*===
-2 44 19|=*==
-1 25 10|*=
0 15 5|*=
1 5 2|*
2 5 1|*
> 3 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1230.2042
P(chi-square) = 0

Total sequences searched: 4073

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: