Forces driving genomic distribution of TIPs. (A) The circle plot reports the distribution of TIPs in the pig pangenome. The outermost circle denotes the number and size of chromosomes (gray), followed by gene density, recombination rate, and TE density on the reference genome. Red, green, purple, and orange represent the distributions of insertion densities of SINE, LINE, LTR, and DNA transposon, respectively. (B) Spearman's rank correlations of TIP densities between major TE classes, and their correlations with gene density and recombination rate. (C) Percentage of major TIP types (DNA transposons, LTR, SINE, and LINE) locating in genomic regions. (D) The 3D scatter plot of correlations among gene densities, recombination rates, and PRE insertion density on Chromosome 11. (E) Percentages of variance components explained by gene density and recombination rate in SINE, LINE, LTR, and DNA transposon insertion densities.
