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_3.hmm [HisKA_3]
Sequence database: AP010948.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_3
Accession: PF07730.2
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
-------- ----------- ----- ------- ---
AP010948_0456 CDS_508923-507637 53.0 3.8e-16 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP010948_0456 1/1 201 277 .. 1 70 [] 53.0 3.8e-16
Alignments of top-scoring domains:
AP010948_0456: domain 1 of 1, from 201 to 277: score 53.0, E = 3.8e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.........
ER+ IARE+HD++g +L+aik+ +++++rl d ++++++++ +
AP010948_0 201 ERREIAREIHDELGAALFAIKVDAGRILRLR--DGGGGgggdgkswd 245
earealdeirelarealaevRrllgdLRpaal<-*
ea+e++ i ++a e + Rr+l +LRpa l
AP010948_0 246 EAAERAGKILDTAAEVHRLSRRILVRLRPALL 277
Histogram of all scores:
score obs exp (one = represents 2 sequences)
----- --- ---
-13 5 0|===
-12 3 7|== *
-11 13 57|======= *
-10 50 134|========================= *
-9 103 152|==================================================== *
-8 81 117|========================================= *
-7 79 73|====================================*===
-6 94 41|====================*==========================
-5 80 22|==========*=============================
-4 26 11|=====*=======
-3 33 6|==*==============
-2 28 3|=*============
-1 16 1|*=======
0 6 0|===
1 7 0|====
2 2 0|=
> 3 5 -|===
% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 466.8934
P(chi-square) = 0
Total sequences searched: 631
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
