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: CP000686.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
-------- ----------- ----- ------- ---
CP000686_4515 CDS_5797594-5799582 65.5 2e-18 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000686_4515 1/1 458 544 .. 1 94 [] 65.5 2e-18
Alignments of top-scoring domains:
CP000686_4515: domain 1 of 1, from 458 to 544: score 65.5, E = 2e-18
*->EIHHRVKNNLQvISSLLrLQarkf..kdeevikdEVleaLrEsqnRV
E+HHRV+NNLQ+IS+LL +Q r+ ++ d+ + aLr+s+ R+
CP000686_4 458 EMHHRVRNNLQTISALLTMQQRRLppNDRSA------IALRDSVARI 498
lSmAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<
+++A +H+ L d++ ++++ + ++e+ + s + ++++ +
CP000686_4 499 QAIAGVHNLLCHE-DVGVTTVDAVARQIVESARLSLSSPERPVHFE--I 544
-*
CP000686_4 - -
Histogram of all scores:
score obs exp (one = represents 20 sequences)
----- --- ---
-15 2 0|=
-14 8 0|=
-13 52 28|=*=
-12 213 296|=========== *
-11 1130 826|=========================================*===============
-10 1039 1069|==================================================== *
-9 767 902|======================================= *
-8 587 605|==============================*
-7 287 359|=============== *
-6 218 200|=========*=
-5 97 107|=====*
-4 50 57|==*
-3 28 29|=*
-2 14 15|*
-1 11 8|*
0 4 4|*
1 2 2|*
2 2 1|*
3 4 0|=
4 0 0|
> 5 2 -|=
% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 196.7345
P(chi-square) = 1.539e-35
Total sequences searched: 4517
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
