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: CP001722.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
-------- ----------- ----- ------- ---
CP001722_0117 CDS_129889-128237 64.5 1.6e-18 1
CP001722_0698 CDS_825580-826593 62.5 6e-18 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001722_0117 1/1 356 445 .. 1 94 [] 64.5 1.6e-18
CP001722_0698 1/1 145 232 .. 1 94 [] 62.5 6e-18
Alignments of top-scoring domains:
CP001722_0117: domain 1 of 1, from 356 to 445: score 64.5, E = 1.6e-18
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+HHRVKNNLQv+SSLL++++r+++ + + a q+RV +
CP001722_0 356 EVHHRVKNNLQVVSSLLSIHSRRAETAKE-----KSAYATIQRRVNA 397
mAliHEeLYksedldt.vdfseYlekLtenLfqsygvgsdgisLklDl<-
A+++++ Y d ++++d+s +++L++ L s + ++ +++ ++
CP001722_0 398 LAIVQRQYYNELDKGQgLDLSLLIKELVNGLQTSLQTFEKNFQIETEI 445
*
CP001722_0 - -
CP001722_0698: domain 1 of 1, from 145 to 232: score 62.5, E = 6e-18
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E +HR+ NNLQvI+SLLr+Q+r+++de++ +ea s++R+
CP001722_0 145 ELQHRISNNLQVIASLLRMQSRSITDEKA-----KEAIDASVRRIHM 186
mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+ +++ LY + ++ + l++L+++ + s ++ +++ +++++
CP001722_0 187 IGELQRALYIKNG-NQLGAKLILDRLIKEVIASSNLPNIRYKIEAED 232
Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-15 2 0|=
-14 6 0|=
-13 20 11|=*=
-12 88 118|============= *
-11 407 329|==============================================*============
-10 385 426|======================================================= *
-9 316 359|============================================== *
-8 222 241|================================ *
-7 144 143|====================*
-6 111 79|===========*====
-5 46 43|======*
-4 24 22|===*
-3 12 11|=*
-2 7 6|*
-1 5 3|*
0 1 1|*
1 1 0|=
> 2 3 -|=
% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 56.2366
P(chi-square) = 4.597e-08
Total sequences searched: 1800
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
