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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2 accessions found for Shigella flexneri 2a str. 301  

Data for AE005674  

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: AE005674.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
-------- ----------- ----- ------- ---
AE005674_1225 CDS_1273430-1271634 82.2 6.6e-24 1
AE005674_3795 CDS_3901294-3902796 63.7 1.9e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE005674_1225 1/1 390 458 .. 1 70 [] 82.2 6.6e-24
AE005674_3795 1/1 304 370 .. 1 70 [] 63.7 1.9e-18

Alignments of top-scoring domains:
AE005674_1225: domain 1 of 1, from 390 to 458: score 82.2, E = 6.6e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
AE005674_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
AE005674_1 435 RNELNASWAQLRELLTTFRlQLTE 458

AE005674_3795: domain 1 of 1, from 304 to 370: score 63.7, E = 1.9e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
AE005674_3 304 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 347

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
AE005674_3 348 EQLSLGVYDAVRRLLGRLRPRQL 370


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-16 3 0|=
-15 1 0|=
-14 16 0|==
-13 72 0|======
-12 226 46|===*=============
-11 261 383|=================== *
-10 610 889|============================================ *
-9 779 1009|======================================================== *
-8 775 778|=======================================================*
-7 505 489|==================================*==
-6 327 276|===================*====
-5 291 148|==========*==========
-4 145 77|=====*=====
-3 70 39|==*==
-2 45 20|=*==
-1 26 10|*=
0 14 5|*
1 5 2|*
2 5 1|*
> 3 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1163.0507
P(chi-square) = 0

Total sequences searched: 4436

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: