<center> <br> <img src="/wiki/download/attachments/17468933/ORF Marker.png"/> <br> </center>
The following search settings Search Settings are available:
Min length — ORFs with length lower than Min length value will not be found.
Must terminate within region — this option ignores boundary ORFs located beyond the search region.
Must start with init codon — item switches the ORF Marker algorithm to the mode when any non-stop amino acid code is interpreted as region start position.
Allow overlaps — alternative (downstream) initiators, when another start codon is located within a longer ORF, i.e. all possible ORFs will be found, not only the longest ones.
Allow alternative init codon — option includes ORFs starting with alternative initiation codons, accordingly to the current translation table.
Include stop codon — includes stop codons into resulting annotations.
Max result— option allows to define the maximum number of results found.
The other available parameters are:
DNA-to-Amino translation table defines the way start, alternative start and stop codons are encoded.
Strand — where to search the ORFs: in the direct strand, in the complement strand or in both strands.
Preview — allow to preview the regions, strands and lengths of the found ORFs.
Clear results — becomes available when some results have been found, clears these results.