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Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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3 accessions found for Yersinia pseudotuberculosis IP 31758  

Data for CP000720  

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: CP000720.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
-------- ----------- ----- ------- ---
CP000720_2092 CDS_2439466-2441247 71.7 7.9e-21 1
CP000720_4019 CDS_4600765-4599236 55.0 6.3e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000720_2092 1/1 392 459 .. 1 70 [] 71.7 7.9e-21
CP000720_4019 1/1 309 374 .. 1 70 [] 55.0 6.3e-16

Alignments of top-scoring domains:
CP000720_2092: domain 1 of 1, from 392 to 459: score 71.7, E = 7.9e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER IARELHDs++QsLs +k+q++ +++++ ++ pe ++++
CP000720_2 392 ERSAIARELHDSIAQSLSCLKIQISCLQMQT--PDLPENSNLLIKQM 436

relarealaevRrllgdLRpaal<-*
r+ ++ a++++R+ll+++R
CP000720_2 437 RDELNIAYRQLRELLTTFRLKLN 459

CP000720_4019: domain 1 of 1, from 309 to 374: score 55.0, E = 6.3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD+vgQ+ ++i+ q++ ++rl+ + ++ + +++i
CP000720_4 309 TRHDVARELHDEVGQTVTVIRTQASIIKRLA--TQQ--PVLTSAEMI 351

relarealaevRrllgdLRpaal<-*
+++a + ++ v ++l L paal
CP000720_4 352 ETAALRVYDGVHDVLAKLWPAAL 374


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-16 1 0|=
-15 5 0|=
-14 73 0|======
-13 167 0|============
-12 171 46|===*=========
-11 311 377|======================= *
-10 626 877|============================================= *
-9 805 995|==========================================================*
-8 585 767|========================================== *
-7 493 482|==================================*=
-6 332 273|===================*====
-5 249 146|==========*=======
-4 127 76|=====*====
-3 65 39|==*==
-2 50 20|=*==
-1 28 10|*=
0 17 5|*=
1 13 2|*
2 1 1|*
3 0 0|
4 2 0|=
> 5 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 739.5344
P(chi-square) = 0

Total sequences searched: 4124

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: