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: CP000514.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
-------- ----------- ----- ------- ---
CP000514_3054 CDS_3425671-3427527 56.5 2.2e-16 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000514_3054 1/1 408 477 .. 1 70 [] 56.5 2.2e-16
Alignments of top-scoring domains:
CP000514_3054: domain 1 of 1, from 408 to 477: score 56.5, E = 2.2e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ER+ IARELHDs++QsLs +k+q+ ++r +l d e+++ ++ l
CP000514_3 408 ERTVIARELHDSLAQSLSYLKMQVTRLR-RL--NIDGEqkpIHDDIL 451
deirelarealaevRrllgdLRpaal<-*
de+ + ++ a++++R+ll ++R +
CP000514_3 452 DELSTGLNSAYRQLRELLATFRLKLD 477
Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 5 0|=
-13 38 0|====
-12 76 43|===*===
-11 154 353|============= *
-10 489 820|========================================= *
-9 693 931|==========================================================*
-8 634 718|===================================================== *
-7 508 451|=====================================*=====
-6 382 255|=====================*==========
-5 346 137|===========*=================
-4 216 71|=====*============
-3 142 36|==*=========
-2 79 18|=*=====
-1 43 9|*===
0 18 4|*=
1 13 2|*=
2 9 1|*
3 4 0|=
> 4 9 -|=
% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1633.2019
P(chi-square) = 0
Total sequences searched: 3858
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
