I am using
getorf to extract open reading frames (at least 70 amino acids long) from genomes/scaffolds. I am using the command:
getorf -find 1 -minsize 210 -sequence genome.fasta -outseq orfs.fasta
My question is, does
getorf report overlapping ORFs within the same reading frame?
Out of a set of alternative overlapping ORFs within the same reading frame, we only wish to extract the longest ORF.
Thanks for any help