USEARCH manual > commands > findorfs
findorfs command
 
The findorfs command finds ORFs in nucleotide sequences. If the ‑xlat option is specified, ORFs are translated to amino acids. The -orfstyle and ‑mincodons options control ORF identification. The ‑output option specifies the output filename.

Example

usearch -findorfs reads.fasta -output orfs.fasta -xlat -orfstyle 7 -mincodons 16