Fig. 2

Sequence alignments of CoV genomes to retroelements by nucmer (cut-off ≥18 bp). A. Proportion of LINE1 (L1) and endogenous retrovirus sequences, showing a dominance of L1 sequences in all virus genomes (nucmer) analysed. B. Dot plot of shared RE sequences in CoV genomes, showing the highest RE-identical sequences in HKU1, followed by NL63 and SARS-CoV-2 (nucmer). Each dot represents an ≥18 bp retroelement sequence also found in the respective CoV genome