Figure 1.

Overview of the RAG-enhanced TE annotation

Schematic representation of the workflow to achieve enhanced TE annotation by utilizing multiple RAGs. Firstly, TEs are annotated in the species of interest (SOI) as well as in RAGs (blue circles). TEs annotated in RAGs are then lifted over to corresponding regions in SOI. Finally, lifted-over TE annotations not overlapping TEs in SOI (degTEs) are either merged to extend existing annotations (left) or are added as new integrants (right). TEs inserted at different evolutionary time points are shown as colored boxes, with transparency indicating their divergence level from the consensus.