pepnet is a method of displaying the residues of a protein in a simple 3,4,3,4 repeating pattern that emulates at a simple level the arrangement of residues around an alpha helix.
Here is a sample session with pepnet:
% pepnet -sask Input sequence: sw:gcn4_yeast Begin at position [start]: 253 End at position [end]: 274 Graph type [x11]:
Mandatory qualifiers (bold if not always prompted):
Optional qualifiers (bold if not always prompted):