Frames can superimpose the pattern of rare codon choices if you provide it with a codon frequency table. By marking the places where potential start codons and stop codons occur, Frames indicates the open reading frames of a nucleic acid sequence.
Frames examines all six translation frames of a sequence.
If your sequence could have intervening sequences in it, use the command line option -ALL to get Frames to show all of the possible start and stop codons in your sequence. If you know the pattern of codon usage in the system under study, Frames marks the occurrence of rare codons in each reading frame. Use the command line option -RARe to have the rare codons marked. In the first figure, potential start codons are indicated by lines extending above the reading frame box and stop codons are indicated by lines extending below the box. In the second figure, potential start codons are indicated by vertical lines above the horizontal and stop codons are indicated by vertical lines below the horizontal.