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: CP001739.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
-------- ----------- ----- ------- ---
CP001739_1032 CDS_1131726-1133123 113.3 4.9e-32 1
CP001739_0080 CDS_90148-88736 87.5 1e-24 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001739_1032 1/1 275 360 .. 1 94 [] 113.3 4.9e-32
CP001739_0080 1/1 280 363 .. 1 94 [] 87.5 1e-24
Alignments of top-scoring domains:
CP001739_1032: domain 1 of 1, from 275 to 360: score 113.3, E = 4.9e-32
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ+I+SLLr+Qark++de+v + a++Es+nR+lS
CP001739_1 275 EIHHRVKNNLQTIASLLRIQARKTEDEAV-----RQAFNESINRILS 316
mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A +HE L ++ +ld++ ++e ++k+++n +++ +++ +++ + +
CP001739_1 317 IAVTHEILAQN-GLDDLKIKEMFSKILKNSIRASIGENLDLKTS--I 360
CP001739_0080: domain 1 of 1, from 280 to 363: score 87.5, E = 1e-24
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ+I+S+L++Qar+++d + +++L+E ++ + S
CP001739_0 280 EIHHRVKNNLQTIASILSMQARRIDDSNM-----KKILNENVSYIDS 321
mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A +HE L + +++++d+++ ++kL + +++ + + +i+ +
CP001739_0 322 IAAVHEILAEQ-GFEDIDIKQLIQKLSSAILNYSSSDTRNIK----I 363
Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-15 4 0|=
-14 8 0|=
-13 33 25|=*=
-12 118 268|======== *
-11 900 746|==============================================*==========
-10 721 966|============================================== *
-9 828 816|==================================================*=
-8 617 547|==================================*====
-7 317 325|====================*
-6 276 181|===========*======
-5 124 97|======*=
-4 57 51|===*
-3 45 27|=*=
-2 15 14|*
-1 13 7|*
0 2 3|*
1 1 1|*
2 1 1|*
> 3 3 -|=
% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 262.7511
P(chi-square) = 0
Total sequences searched: 4083
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
