If an amino acid is not used at all in one of the tables, its codons contribute nothing to the sum of squares. These ignored codons are counted and reported. You can write the results of a session with Correspond to a file or display the results on the screen only. Frames plots open reading frames of a nucleic acid sequence as boxes bordered by potential start and stop codons. Potential start codons are shown as short lines that extend above the box and potential stop codons are shown as short lines that extend below the box.
Frames examines all six translation frames of a sequence.
If your sequence could have intervening sequences in it, use -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 -RARe to have the rare codons marked. Human, mouse and arabidopsis exons are predicted by a program called MZEF, and fission yeast exons are predicted by a program called Pombe. Terminator finds all discrete examples in the searched sequence where a measurement falls above some user-defined threshold value.