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 Escherichia coli CFT073  

Data for AE014075  

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: AE014075.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
-------- ----------- ----- ------- ---
AE014075_1630 CDS_1516418-1514622 79.6 4.7e-23 1
AE014075_2921 CDS_2856482-2858197 76.1 5.1e-22 1
AE014075_4495 CDS_4354937-4353429 63.7 2.4e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE014075_1630 1/1 390 458 .. 1 70 [] 79.6 4.7e-23
AE014075_2921 1/1 366 433 .. 1 70 [] 76.1 5.1e-22
AE014075_4495 1/1 306 372 .. 1 70 [] 63.7 2.4e-18

Alignments of top-scoring domains:
AE014075_1630: domain 1 of 1, from 390 to 458: score 79.6, E = 4.7e-23
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
AE014075_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + ++R+ll+++R ++
AE014075_1 435 RNELNASWVQLRELLTTFRlQLTE 458

AE014075_2921: domain 1 of 1, from 366 to 433: score 76.1, E = 5.1e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++ql l++r + ++d++ a+ ++
AE014075_2 366 ERATIARELHDSLAQVLSYLRIQLTLLKRSI--PEDNATAQSIMADF 410

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll+++R +
AE014075_2 411 SQALNDAYRQLRELLTTFRLTLQ 433

AE014075_4495: domain 1 of 1, from 306 to 372: score 63.7, E = 2.4e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
AE014075_4 306 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 349

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
AE014075_4 350 EQLSLGVYDAVRRLLGRLRPRQL 372


Histogram of all scores:
score obs exp (one = represents 18 sequences)
----- --- ---
-16 2 0|=
-15 2 0|=
-14 93 0|======
-13 203 0|============
-12 268 60|===*===========
-11 386 493|====================== *
-10 865 1143|================================================= *
-9 1023 1299|========================================================= *
-8 808 1001|============================================= *
-7 638 629|==================================*=
-6 397 356|===================*===
-5 316 191|==========*=======
-4 181 99|=====*=====
-3 80 51|==*==
-2 50 26|=*=
-1 28 13|*=
0 16 6|*
1 5 3|*
2 6 1|*
3 4 0|=
4 1 0|=
5 0 0|
6 1 0|=
7 1 0|=
8 0 0|
9 1 0|=
> 10 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1125.6410
P(chi-square) = 0

Total sequences searched: 5379

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: 21K


Acknowledgements:

This research is funded by:

Developed by: