The context score for a specific site is the sum of the contribution of these four features: The sum of the context scores for each miRNA was calculated, and the most favorable (i.e., lowest) is displayed.

Predicted targets of a miRNA family are sorted by total context score, calculated as in Grimson et al., 2007. The representative miRNA is the miRNA in this family with the most favorable total context score. If more than one miRNA have the most favorable context score, the miRNA with the lowest number and/or letter is shown. Poorly conserved sites are given the same weight as conserved sites.

Since overlapping sites cannot be occupied at the same time, some are removed from this table to create a set of non-overlapping sites while maximizing the total context score. These non-overlapping sites are used to calculate the total context score. All sites are still shown on the gene-centric detail pages.