Acidobacteria Actinobacteria Alphaproteobacteria
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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
106 projects found  

1 accessions found for Mycobacterium bovis BCG str. Pasteur 1173P2  

Data for AM408590  

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: AM408590.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
-------- ----------- ----- ------- ---
AM408590_3160 CDS_3450975-3449239 53.9 1.3e-15 1
AM408590_2050 CDS_2258160-2256439 51.3 7.9e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM408590_3160 1/1 386 452 .. 1 70 [] 53.9 1.3e-15
AM408590_2050 1/1 383 441 .. 1 70 [] 51.3 7.9e-15

Alignments of top-scoring domains:
AM408590_3160: domain 1 of 1, from 386 to 452: score 53.9, E = 1.3e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R RIAR+LHD v Q+L+ai l l++a + ++ ++e++++l +
AM408590_3 386 DRDRIARDLHDHVIQRLFAIGLALQGA--VP--HERNPEVQQRLSDV 428

relarealaevRrllgdLR.paal<-*
+ +++ ++e+R ++ dL++ ++
AM408590_3 429 VDDLQDVIQEIRTTIYDLHgASQG 452

AM408590_2050: domain 1 of 1, from 383 to 441: score 51.3, E = 7.9e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R RIAR+LHD v Q+L+a+ l l++a + r+++ ++
AM408590_2 383 DRDRIARDLHDHVIQRLFAVGLTLQGA-----------APRARVPAV 418

relarealaevRrllgdLRpaal<-*
re + +++++ ++++++R a++
AM408590_2 419 RESIYSSIDDLQEIIQEIRSAIF 441


Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-14 4 0|=
-13 25 0|===
-12 68 44|===*===
-11 150 362|============== *
-10 415 840|====================================== *
-9 639 954|==========================================================*
-8 641 735|==========================================================*
-7 542 462|=========================================*========
-6 471 261|=======================*===================
-5 425 140|============*==========================
-4 231 73|======*==============
-3 119 37|===*=======
-2 91 19|=*=======
-1 55 9|*====
0 27 4|*==
1 19 2|*=
2 13 1|*=
3 5 0|=
4 5 0|=
5 4 0|=
6 1 0|=
7 0 0|
8 0 0|
> 9 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2217.1367
P(chi-square) = 0

Total sequences searched: 3988

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: