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ApE was developed to be a small, easy to use plasmid editor. Creates graphic restriction maps- linear or circular with features indicated. Connects graphic and text features with hyperlink double click. Saves graphics as encapsulated postscript or scalable vector graphics. Copy and save graphics as Windows metafiles (MS Windows only).

Selects sites matching multiple criteria (union/intersection- cut frequency, site type) in all open windows. Selects sites that cut more often in one sequence than another (for snip-SNP detection or diagnostic digests). Has user defined enzyme grouping to distiguish eg. enzymes currently in stock. Allows users to define new enzymes by name and recognition site. Imports DNA Strider format files (simple enzyme, site lists) available from REBASE.