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Classification of phyla is from NCBI page
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2 accessions found for Yersinia pseudotuberculosis PB1/+  

Data for CP001048  

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: CP001048.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP001048_1974 CDS_2220749-2218968 71.7 8e-21 1
CP001048_4013 CDS_4543459-4541930 55.2 5.7e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001048_1974 1/1 392 459 .. 1 70 [] 71.7 8e-21
CP001048_4013 1/1 309 374 .. 1 70 [] 55.2 5.7e-16

Alignments of top-scoring domains:
CP001048_1974: domain 1 of 1, from 392 to 459: score 71.7, E = 8e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER IARELHDs++QsLs +k+q++ +++++ ++ pe ++++
CP001048_1 392 ERSAIARELHDSIAQSLSCLKIQISCLQMQT--PDLPENSNLLIKQM 436

relarealaevRrllgdLRpaal<-*
r+ ++ a++++R+ll+++R
CP001048_1 437 RDELNIAYRQLRELLTTFRLKLN 459

CP001048_4013: domain 1 of 1, from 309 to 374: score 55.2, E = 5.7e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD+vgQ+ ++i+ q++ ++rl+ + ++ + +++i
CP001048_4 309 TRHDVARELHDEVGQTVTVIRTQASIIKRLT--TQQ--PVLTSAEMI 351

relarealaevRrllgdLRpaal<-*
+++a + ++ v ++l L paal
CP001048_4 352 ETAALRVYDGVHDVLAKLWPAAL 374


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-16 1 0|=
-15 1 0|=
-14 61 0|=====
-13 159 0|===========
-12 203 46|===*==========
-11 288 380|==================== *
-10 630 882|========================================== *
-9 843 1002|========================================================= *
-8 586 772|======================================== *
-7 502 485|================================*=
-6 328 274|==================*===
-5 236 147|=========*======
-4 125 76|=====*===
-3 69 39|==*==
-2 51 20|=*==
-1 31 10|*==
0 18 5|*=
1 12 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 = 929.8843
P(chi-square) = 0

Total sequences searched: 4150

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: