The green workspace shows the work of a user trying to answer the question "“What sequences might regulate the expression of genes encoding glutamine synthetase in marine cyanobacteria?” The strategy is to examine the sequences upstream of the genes, looking for sequence motifs that are conserved amongst the marine cyanobacteria.

The first function defines the variable gln-orthologs as the set of orthologs in marine cyanobacteria of a gene the user knows to encode glutamine synthetase. ("Orthologs" are genes that are related by common evolutionary descent). The second function is in the midst of being completed. The user is choosing the newly defined variable from the VARIABLES menu to be inserted into a function that will extract the sequences upstream from all the orthologs and then find possible motifs. It does so by finding statistically overrepresented sequences within the set of sequences, using MEME.