silent does a scan of a nucleic acid sequence for silent mutation restriction enzyme sites.

Here is a sample session with silent:

% silent
Silent mutation restriction enzyme scan
Input sequence: embl:hsfau
Comma separated enzyme list [all]: ecori,hindiii
Output file [hsfau.silent]:

Mandatory qualifiers:

[-seq] (sequence)

Sequence USA.

-enzymes (string)

Comma-separated enzyme list.

[-outf] (outfile)

Output filename.

Advanced qualifiers:

-sshow (boolean)

Display untranslated sequence.

-tshow (boolean)

Display translated sequence.

-allmut (boolean)

Display all mutations.