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: CP000870.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
-------- ----------- ----- ------- ---
CP000870_0569 CDS_624021-626036 63.3 4.6e-19 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000870_0569 1/1 453 523 .. 1 70 [] 63.3 4.6e-19
Alignments of top-scoring domains:
CP000870_0569: domain 1 of 1, from 453 to 523: score 63.3, E = 4.6e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrllds..dkdpeeareald
E aRIARELHD +gQ+L+a+k+ +++++ l + +++ +re+l+
CP000870_0 453 EKARIARELHDDLGQQLTALKMDVSAVELGL-AgvVAPNTGVREQLR 498
eirelarealaevRrllgdLRpaal<-*
+++l++ + a vRr++ dLRp l
CP000870_0 499 GMHRLIDSTVASVRRIAADLRPVML 523
Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-13 5 0|==
-12 20 9|==*====
-11 30 75|========== *
-10 78 175|========================== *
-9 134 198|============================================= *
-8 126 153|========================================== *
-7 109 96|===============================*=====
-6 87 54|=================*===========
-5 91 29|=========*=====================
-4 46 15|====*===========
-3 37 7|==*==========
-2 22 4|=*======
-1 13 2|*====
0 7 1|*==
1 5 0|==
2 6 0|==
3 3 0|=
4 0 0|
> 5 4 -|==
% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 441.5397
P(chi-square) = 0
Total sequences searched: 823
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
