FIG 4.

Predicted structure, target identification, and expression levels for selected differentially expressed itsRNAs. (A) Two-dimensional (2D) layout of consensus structures with base-pair coloring showing sequence and structure conservation and interactions peaks (green and yellow arrows); STAR profile plots with dark regions indicating structure reliability, light regions representing sequence reliability, and thin lines showing the combined column reliability as computed by LocARNA-P. (B) Interaction plots of itsRNAs and their predicted targets. The top graphs are density plots calculated from the top 100 putative targets, and on the bottom are dumbbell plots of interactions (blue dumbbells) along the length of the itsRNA for the top 100 predicted mRNA targets; interaction peaks are shown in green and yellow in the predicted structures; (C) Expression levels represented as normalized counts for each itsRNA in 2016 and in 2017 across all samples.