recoder scans a given nucleotide sequence for restriction sites. It reports single base positions in the restriction pattern which when mutated remove the restriction site while maintaining the same translation (in frame 1 of the input sequence).

Here is a sample session with recoder:

% recoder
Find and remove restriction sites but maintain the same translation
Input sequence: em:hsfau
Comma separated enzyme list [all]: EcoRII
Output file [hsfau.recoder]:

Mandatory qualifiers:

[-seq] (sequence)

Nucleic acid sequence.

-enzymes (string)

Comma-separated enzyme list

[-outf] (outfile)

Results filename

Advanced qualifiers:

-sshow (boolean)

Display untranslated sequence.

-tshow (boolean)

Display translated sequence.