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Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
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Thermotogae
Classification of phyla is from NCBI page
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3 accessions found for Salmonella enterica subsp. enterica serovar Newport str. SL254  

Data for CP001113  

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: CP001113.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
-------- ----------- ----- ------- ---
CP001113_1788 CDS_1860461-1862257 74.3 1.5e-21 1
CP001113_2511 CDS_2589103-2590803 72.9 3.8e-21 1
CP001113_3808 CDS_3961138-3959636 65.1 7.9e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001113_1788 1/1 390 458 .. 1 70 [] 74.3 1.5e-21
CP001113_2511 1/1 361 428 .. 1 70 [] 72.9 3.8e-21
CP001113_3808 1/1 304 370 .. 1 70 [] 65.1 7.9e-19

Alignments of top-scoring domains:
CP001113_1788: domain 1 of 1, from 390 to 458: score 74.3, E = 1.5e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d pe re l +i
CP001113_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DVLPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
CP001113_1 435 RNELNCSWAQLRELLTTFRlQLTE 458

CP001113_2511: domain 1 of 1, from 361 to 428: score 72.9, E = 3.8e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++ql l++r++ ++d++ a+ ++
CP001113_2 361 ERATIARELHDSLAQVLSYLRIQLTLLKRAI--PEDNAGAQSIMADF 405

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll+++R +
CP001113_2 406 SRALNDAYRQLRELLTTFRLTLQ 428

CP001113_3808: domain 1 of 1, from 304 to 370: score 65.1, E = 7.9e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
CP001113_3 304 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNGGVKQSGQLI 347

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CP001113_3 348 EQLSLGVYDAVRRLLGRLRPRQL 370


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-15 5 0|=
-14 94 0|=======
-13 169 0|============
-12 209 51|===*==========
-11 311 422|===================== *
-10 764 980|=================================================== *
-9 829 1113|======================================================== *
-8 642 858|=========================================== *
-7 528 539|===================================*
-6 395 305|====================*======
-5 312 163|==========*==========
-4 137 85|=====*====
-3 88 43|==*===
-2 53 22|=*==
-1 31 11|*==
0 18 5|*=
1 11 2|*
2 4 1|*
3 4 0|=
4 1 0|=
5 3 0|=
> 6 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1022.2471
P(chi-square) = 0

Total sequences searched: 4612

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: