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Classification of phyla is from NCBI page
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3 accessions found for Yersinia pestis Pestoides F  

Data for CP000668  

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: CP000668.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
-------- ----------- ----- ------- ---
CP000668_1135 CDS_1308880-1310661 71.7 7.4e-21 1
CP000668_3300 CDS_3868235-3866706 55.2 5.3e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000668_1135 1/1 392 459 .. 1 70 [] 71.7 7.4e-21
CP000668_3300 1/1 309 374 .. 1 70 [] 55.2 5.3e-16

Alignments of top-scoring domains:
CP000668_1135: domain 1 of 1, from 392 to 459: score 71.7, E = 7.4e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER IARELHDs++QsLs +k+q++ +++++ ++ pe ++++
CP000668_1 392 ERSAIARELHDSIAQSLSCLKIQISCLQMQT--PDLPENSNLLIKQM 436

relarealaevRrllgdLRpaal<-*
r+ ++ a++++R+ll+++R
CP000668_1 437 RDELNIAYRQLRELLTTFRLKLN 459

CP000668_3300: domain 1 of 1, from 309 to 374: score 55.2, E = 5.3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD+vgQ+ ++i+ q++ ++rl+ + ++ + +++i
CP000668_3 309 TRHDVARELHDEVGQTVTVIRTQASIIKRLT--TQQ--PVLTSAEMI 351

relarealaevRrllgdLRpaal<-*
+++a + ++ v ++l L paal
CP000668_3 352 ETAALRVYDGVHDVLAKLWPAAL 374


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-14 22 0|==
-13 108 0|========
-12 153 43|===*=======
-11 317 352|======================= *
-10 564 818|========================================= *
-9 775 929|======================================================== *
-8 571 716|========================================= *
-7 467 450|================================*=
-6 337 254|==================*======
-5 241 136|=========*========
-4 118 71|=====*===
-3 69 36|==*==
-2 45 18|=*==
-1 25 9|*=
0 18 4|*=
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 = 646.5624
P(chi-square) = 0

Total sequences searched: 3850

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: