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Classification of phyla is from NCBI page
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4 accessions found for Yersinia pestis Antiqua  

Data for CP000308  

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: CP000308.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
-------- ----------- ----- ------- ---
CP000308_1340 CDS_1511061-1509280 71.7 8e-21 1
CP000308_3828 CDS_4321199-4320489 55.2 5.7e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000308_1340 1/1 392 459 .. 1 70 [] 71.7 8e-21
CP000308_3828 1/1 36 101 .. 1 70 [] 55.2 5.7e-16

Alignments of top-scoring domains:
CP000308_1340: domain 1 of 1, from 392 to 459: score 71.7, E = 8e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER IARELHDs++QsLs +k+q++ +++++ ++ pe ++++
CP000308_1 392 ERSAIARELHDSIAQSLSCLKIQISCLQMQT--PDLPENSNLLIKQM 436

relarealaevRrllgdLRpaal<-*
r+ ++ a++++R+ll+++R
CP000308_1 437 RDELNIAYRQLRELLTTFRLKLN 459

CP000308_3828: domain 1 of 1, from 36 to 101: score 55.2, E = 5.7e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD+vgQ+ ++i+ q++ ++rl+ + ++ + +++i
CP000308_3 36 TRHDVARELHDEVGQTVTVIRTQASIIKRLT--TQQ--PVLTSAEMI 78

relarealaevRrllgdLRpaal<-*
+++a + ++ v ++l L paal
CP000308_3 79 ETAALRVYDGVHDVLAKLWPAAL 101


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-14 29 0|===
-13 126 0|=========
-12 168 46|===*========
-11 352 381|========================== *
-10 604 886|============================================ *
-9 811 1006|==========================================================*
-8 640 775|============================================== *
-7 496 487|==================================*=
-6 391 275|===================*========
-5 246 148|==========*=======
-4 120 77|=====*===
-3 72 39|==*===
-2 45 20|=*==
-1 29 10|*==
0 18 5|*=
1 13 2|*
2 2 1|*
3 0 0|
4 2 0|=
> 5 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 728.1394
P(chi-square) = 0

Total sequences searched: 4167

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: