Heuristic Approach for Gene Prediction

John Besemer and Mark Borodovsky
Heuristic approach to deriving models for gene finding
Nucleic Acids Research (1999) 27, pp 3911-3920

Wenhan Zhu, Alex Lomsadze and Mark Borodovsky
Ab initio gene identification in metagenomic sequences
Nucleic Acids Research (2010) 38, e132

This webpage provides accesses to heuristic gene finding parameters and to gene prediction program GeneMark.hmm prokaryotic (version 3.25).
   Browse Heuristic Approach manual
   Input sequence
Enter sequence (FASTA or multi FASTA format)
or, upload file:
   Action
 
   Options
Output format
for gene prediction
Output options Optional: results
by E-mail
LST
GFF
Protein sequence
Gene nucleotide sequence

   Coding potential graph
   (not for multi FASTA)
PDF
PostScript
E-mail

Subject

Compress files
   Advanced options
Select genetic code:
genetic code 11
"ATG" only start codon, genetic code 1
"TGA" codon as a Tryptophan (not as a stop codon), genetic code 4

Predict on strand:
both
direct
reverse

Heuristic parameters, as in 1999 publication
Heuristic (MetaGeneMark) parameters, as in 2010 publication
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