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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_2.hmm [HisKA_2]
Sequence database: CP001778.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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
-------- ----------- ----- ------- ---
CP001778_5089 CDS_5501671-5500193 117.7 4.3e-33 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001778_5089 1/1 299 379 .. 1 94 [] 117.7 4.3e-33
Alignments of top-scoring domains:
CP001778_5089: domain 1 of 1, from 299 to 379: score 117.7, E = 4.3e-33
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQar++ + + ++aL+Es++RV S
CP001778_5 299 EIHHRVKNNLQTVAALLRLQARRVGVPQA-----RAALEESVRRVTS 340
mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+Al+HE L++s d + v f++ ++k+++ + ++ +s+ +
CP001778_5 341 IALVHETLSRSSD-EAVSFDAIVDKVASMAAEVAAPESQ-------V 379
Histogram of all scores:
score obs exp (one = represents 31 sequences)
----- --- ---
-15 14 0|=
-14 33 0|==
-13 75 39|=*=
-12 410 419|=============*
-11 1789 1166|=====================================*====================
-10 1497 1509|================================================*
-9 1000 1275|================================= *
-8 743 855|======================== *
-7 313 508|=========== *
-6 286 282|=========*
-5 88 152|=== *
-4 62 80|==*
-3 29 42|=*
-2 20 22|*
-1 12 11|*
0 4 5|*
1 1 3|*
2 0 1|*
> 3 3 -|=
% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 548.1185
P(chi-square) = 0
Total sequences searched: 6379
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
