The landscape of transposable elements (TEs) in the maize NAM founder genomes. (A) Pangenome TE family number and size. Single-copy intact TEs are those not classified by the 80-80-80 rule and are mostly single-copy elements. (B) Mean size of the 50 largest TE families in the NAM founder genomes. All these families are LTR retrotransposons (LTR-RTs). The error bars denote the standard deviation among the NAM founder genomes. Clade-level classification of LTR families is denoted with different bar colors. (C) Summary of the number and percentage of pangenome TE families in the NAM founder genomes. The order of genomes was shuffled 1000 times.