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_2.hmm [HisKA_2]
Sequence database: CP000758.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
CP000758_1234 CDS_1318020-1319402 86.2 1.6e-24 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000758_1234 1/1 262 343 .. 1 94 [] 86.2 1.6e-24
Alignments of top-scoring domains:
CP000758_1234: domain 1 of 1, from 262 to 343: score 86.2, E = 1.6e-24
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
+HR+ N+L+++SSLL LQ r++++e++ ++aL +++RV++
CP000758_1 262 DTNHRIGNSLATVSSLLGLQMRQTRSEDA-----RAALAAARDRVQT 303
mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+++ H++L +ed+++ ++++l ++++++ + g +++ +
CP000758_1 304 VSTAHRRLRLGEDMESARVDDFLGTVINDIRTAIGQDRK-------I 343
Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-15 2 0|=
-14 7 0|=
-13 42 17|=*==
-12 136 179|=========== *
-11 727 499|======================================*=================
-10 594 646|============================================== *
-9 477 545|===================================== *
-8 296 366|======================= *
-7 196 217|================*
-6 135 121|=========*=
-5 51 65|====*
-4 32 34|==*
-3 13 18|=*
-2 9 9|*
-1 11 4|*
> 0 3 -|=
% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 185.3090
P(chi-square) = 8.205e-34
Total sequences searched: 2731
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
