Fig. 5
Features of annotations calculated by Red, REPET, and RM. a Venn diagram showing the overlaps between the annotation files calculated with Red (RED), TRF (SSR), and REPET (TE + DM), and CNVs [11]. Values correspond to coverage percentages in galGal4. b Distributions of annotations sizes calculated with Red, TRF (SSR) and REPET (DM, TE and TE + DM), and those of the CNVs [11]. DM annotations were split into two batches corresponding to DM annotations that extend pre-existing annotations produced with the same TE model (DM extended) and those that are new (DM new). c Size distributions of LINE, LTR, TIR and SSR annotations calculated with RM together with those obtained with REPET or TRF for the same categories. Vertical axes in A and B indicate log10(sizes) in bp. The red lines in the box plot indicate the median value, the ends of grey boxes the quartile 1 and 3 values, the ends of whisker the 10th and 91st percentiles of the size distribution, and the black stars the highest and the values above or below the 1.5 interquartile range respectively within 1.5 interquartile range of the highest or the lowest quartile