The parameters and switches listed below can be set from the command line. Use the -PROtein switch if the patterns are amino acids and not nucleotides. The default is to write each sequence into a separate output file. Wisconsin Package programs for peptide sequence analysis can use peptide sequences in one-letter codes only. Wisconsin Package programs for peptide sequence analysis can use peptide sequences in one-letter codes only.
List writes a list file with the names of the output sequence files.
If you don't specify a filename, then Reformat makes one up using Reformat for the filename and .List for the filename extension. If -MSF is on the command line, this option is ignored and a list file will not be written. Txt Usually, translation is based on the translation table in a default or local data file called Translate . This option allows you to use a translation table in a different file. This program normally monitors its progress on your screen.