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: CP000671.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
-------- ----------- ----- ------- ---
CP000671_0321 CDS_324497-322794 68.8 2.2e-20 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000671_0321 1/1 364 436 .. 1 70 [] 68.8 2.2e-20
Alignments of top-scoring domains:
CP000671_0321: domain 1 of 1, from 364 to 436: score 68.8, E = 2.2e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe....earea
ER IARELHDs++Q Ls + +ql l+++ l +k++e+++++ +
CP000671_0 364 ERSIIARELHDSLAQVLSFLQIQLTLLKHNL--KKEDEqskeKSLAI 408
ldeirelarealaevRrllgdLR.paal<-*
+++ +++++ ++a++R+ll ++R + ++
CP000671_0 409 IANFEQALSGGYAQLRELLATFRlTIQE 436
Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-14 38 0|=======
-13 54 0|=========
-12 81 18|==*===========
-11 153 148|========================*=
-10 321 345|====================================================== *
-9 311 391|==================================================== *
-8 215 302|==================================== *
-7 154 189|========================== *
-6 117 107|=================*==
-5 81 57|=========*====
-4 45 30|====*===
-3 25 15|==*==
-2 9 7|=*
-1 12 4|*=
0 4 2|*
1 1 1|*
2 0 0|
> 3 2 -|=
% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 292.1601
P(chi-square) = 0
Total sequences searched: 1623
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
