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: CP000859.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
-------- ----------- ----- ------- ---
CP000859_0030 CDS_36115-30896 46.4 1.8e-13 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000859_0030 1/1 1528 1592 .. 1 70 [] 46.4 1.8e-13
Alignments of top-scoring domains:
CP000859_0030: domain 1 of 1, from 1528 to 1592: score 46.4, E = 1.8e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIA ELHD +g++L+++k++le++ k ++e +++l+
CP000859_0 1528 ERRRIATELHDRIGHALAGAKIGLETL------CKGSAkEHEARLRD 1568
irelarealaevRrllgdLRpaal<-*
+ + +++++a++R l +L p++l
CP000859_0 1569 VLAVLDQSIADTRTLTFELSPPIL 1592
Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-14 11 0|=
-13 51 0|=====
-12 91 36|===*=====
-11 213 299|==================== *
-10 509 694|=============================================== *
-9 644 788|==========================================================*
-8 495 607|============================================= *
-7 430 382|==================================*=====
-6 305 216|===================*========
-5 219 115|==========*=========
-4 118 60|=====*=====
-3 74 31|==*====
-2 55 15|=*===
-1 17 8|*=
0 17 4|*=
1 6 2|*
2 3 1|*
3 0 0|
4 2 0|=
5 2 0|=
6 1 0|=
> 7 2 -|=
% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 556.5890
P(chi-square) = 0
Total sequences searched: 3265
Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K
Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K
