Fig. 5
An example of a TargetScanFly page, which displays the predicted sites of conserved miRNAs within the Ubx 3′ UTR. At the top is the 3′ UTR profile, showing the relative expression of tandem 3′ UTR isoforms, as measured using 3′-seq [74] as well as our 3P-seq data. Shown on this profile is the end of the longest FlyBase annotation (blue vertical line) and the number of 3′-end reads (525) used to generate the profile (labeled on the y-axis). Below the profile are conserved and poorly conserved sites for miRNAs broadly conserved among insects (colored according to the key), with options to also display sites for poorly conserved miRNAs and other miRBase annotations. Boxed are the predicted miR-iab-8 sites, with the site selected by the user indicated with a darker box. The multiple sequence alignment shows the species in which an orthologous site can be detected (white highlighting) among 27 insect species. Below the alignment is the predicted consequential pairing between the selected miRNA and its conserved and poorly conserved sites, showing also for each site its position, site type, context score, context score percentile, weighted context score, branch-length score, and PCT score