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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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Data for CP001891  

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: CP001891.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
-------- ----------- ----- ------- ---
CP001891_1951 CDS_2092498-2090720 82.6 6e-24 1
CP001891_0033 CDS_33034-34539 65.1 8.3e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001891_1951 1/1 390 458 .. 1 70 [] 82.6 6e-24
CP001891_0033 1/1 305 371 .. 1 70 [] 65.1 8.3e-19

Alignments of top-scoring domains:
CP001891_1951: domain 1 of 1, from 390 to 458: score 82.6, E = 6e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ p+e r+ l +i
CP001891_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPAESRQLLGQI 434

relarealaevRrllgdLR.paal<-*
r ++++ a++R+ll+++R ++
CP001891_1 435 RNELNTSWAQLRELLTTFRlQLTE 458

CP001891_0033: domain 1 of 1, from 305 to 371: score 65.1, E = 8.3e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +++ +r+ + i
CP001891_0 305 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---PNNASVRQSGQLI 348

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CP001891_0 349 EQLSLGVYDSVRRLLGRLRPRQL 371


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-15 1 0|=
-14 17 0|=
-13 100 0|======
-12 147 56|===*=====
-11 254 463|=============== *
-10 747 1075|============================================ *
-9 954 1221|========================================================= *
-8 800 941|================================================ *
-7 657 591|==================================*====
-6 489 334|===================*=========
-5 389 179|==========*============
-4 204 93|=====*======
-3 117 48|==*====
-2 69 24|=*===
-1 50 12|*==
0 24 6|*=
1 17 3|*
2 4 1|*
3 7 0|=
4 3 0|=
5 2 0|=
6 0 0|
> 7 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1209.8887
P(chi-square) = 0

Total sequences searched: 5057

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: