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: CP001485.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
-------- ----------- ----- ------- ---
CP001485_2034 CDS_2313024-2311669 59.0 3e-17 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001485_2034 1/1 250 315 .. 1 70 [] 59.0 3e-17
Alignments of top-scoring domains:
CP001485_2034: domain 1 of 1, from 250 to 315: score 59.0, E = 3e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
E +++ARELHD++ Q L + k +lel++ +l ++ + +l+
CP001485_2 250 EKKHLARELHDGINQLLVSSKCHLELLANQL--NDP--KQIVHLEKS 292
relarealaevRrllgdLRpaal<-*
++ + +a++evRr+ ++LRp+al
CP001485_2 293 QHSLMTAINEVRRISHHLRPSAL 315
Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 1 0|=
-14 40 0|====
-13 69 0|=======
-12 95 30|==*=======
-11 157 253|================ *
-10 437 589|============================================ *
-9 574 668|==========================================================*
-8 432 515|============================================ *
-7 341 324|================================*==
-6 218 183|==================*===
-5 173 98|=========*========
-4 95 51|=====*====
-3 56 26|==*===
-2 40 13|=*==
-1 15 6|*=
0 7 3|*
1 8 1|*
2 5 0|=
3 2 0|=
4 1 0|=
5 1 0|=
> 6 3 -|=
% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 431.6989
P(chi-square) = 0
Total sequences searched: 2770
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
