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: CP000740.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
-------- ----------- ----- ------- ---
CP000740_0808 CDS_915932-914865 114.3 6.8e-33 1
CP000740_0759 CDS_860073-861143 51.7 4.4e-15 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000740_0808 1/1 158 242 .. 1 94 [] 114.3 6.8e-33
CP000740_0759 1/1 163 246 .. 1 94 [] 51.7 4.4e-15
Alignments of top-scoring domains:
CP000740_0808: domain 1 of 1, from 158 to 242: score 114.3, E = 6.8e-33
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E++HRV N+LQ++S L +Q++ +++++v ++aL + +RVl+
CP000740_0 158 EVNHRVGNSLQLVSTFLLMQSDMSDEPHV-----KAALASAYGRVLA 199
mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H++LY+s+d+ tv ++ Yl L+ ++ s+++ ++++s l
CP000740_0 200 IAQVHKRLYTSDDVRTVALDNYLHALVVDIGASAAGANGWLS----L 242
CP000740_0759: domain 1 of 1, from 163 to 246: score 51.7, E = 4.4e-15
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E +HRVKNNLQ+I++L+rL+ar +++ ++ +RV +
CP000740_0 163 ELQHRVKNNLQMITALIRLEARGNPPPDT------RSFERLAGRVEA 203
mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
++++ +++ vd++ Y+ +++ + s + ++ ++ +
CP000740_0 204 LTTLYDAMANGDSSQEVDLGTYIGQIAAAVMASNACDGVSLD----M 246
Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-15 1 0|=
-14 12 0|===
-13 23 6|=*===
-12 89 71|==============*===
-11 274 200|=======================================*===============
-10 232 258|=============================================== *
-9 186 218|====================================== *
-8 125 146|========================= *
-7 44 87|========= *
-6 58 48|=========*==
-5 27 26|=====*
-4 6 13|==*
-3 3 7|=*
-2 4 3|*
-1 1 1|*
0 2 1|*
1 2 0|=
2 0 0|
3 0 0|
> 4 5 -|=
% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 108.0442
P(chi-square) = 3.676e-19
Total sequences searched: 1094
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
