Additional file 1 of Epigenetic silencing and genome dynamics determine the fate of giant virus endogenizations in Acanthamoeba

Additional file 1. Figures S1–S8. Word document. Fig. S1 Synteny between Neff and C3 chromosomes. Fig. S2 Phylogeny of serine/threonine kinase endogenized into the Neff genome. Fig. S3 Distance from chromosome ends of genomic features in Neff and C3. Fig. S4 Detailed characterization of representative viral insertions in Acanthamoeba str. Neff. Fig. S5 Mobile element diversity based on genomic context in Neff and C3. Fig. S6 Methylation level of genes, mobile elements, and intergenic regions in Acanthamoeba strains Neff and C3. Fig. S7 Methylation level of viral genes and regions in Acanthamoeba strains Neff and C3. Fig. S8 Comparison of Nanopolish and Enzymatic Methyl-seq analyses.