Professor Xu is ready to design the species for this semester's MGX lab.

She draws pictures of the six floribunda phenotypes she has imagined, and scans them to create images.

This semester all the alleles will have the same shape when folded - the particular biological activity will depend on some of the particular amino acids that make up the protein. Next semester she thinks she will make the alleles all have different shapes, but allow any protein that folds to that shape do the job. She understands (and will explain to her students) that these are unrealistic oversimplifications of the way real proteins fold in order to function, but that they are good models for teaching the principles.

She opens the protein investigator (PI) and designs one template protein for each of the alleles she plans for her organisms (There may be more alleles than phenotypes, or fewer, depending on the biochemistry and heredity mechanisms she imagines.)  She saves the list of proteins. (Perhaps using the histlist feature of PI.)

She opens the MGX Species Editor, names the species she's about to build "floribunda", imports the phenotype images and the template proteins for the alleles.

For each of the alleles she fills in the table of content restrictions that determine whether a protein with the same shape as the template will be biologically active.

(The Species Editor checks that the template protein supplied for the allele actually honors the content restrictions she specifies.)

(The Species Editor checks that there is no ambiguity in the list of content restrictions - i.e. that any folded protein matches at most one allele in shape and content.)

For each pair of alleles she specifies the phenotype.

She saves the newly created species in file floribunda.spc.