Fig. 4: Population properties of VNTR loci.
From: Profiling variable-number tandem repeat variation across populations using repeat-pangenome graphs
a Ratios of median length between populations for loci with significant differences in average length. Loci are stratified by accuracy prediction (<0.8), medium (0.8–0.9), and high (0.9+). b Manhattan plot of VST values. c, d The distribution of estimated length via k-mer dosage in continental populations for PLCL1 and SPATA18 VNTR loci, selected to visualize the distribution of dosage in different populations. Each point is an individual. e Differential usage and expansion of motifs between the EAS and AFR populations. For each locus, the proportion of variance explained by the most informative k-mer in the EAS is shown for the EAS and AFR populations on the x- and y-axes, respectively. Points are colored by the difference in normalized k-mer counts, with red and blue indicating k-mers more abundant in EAS and AFR populations, respectively. f An example VNTR with differential motif usage. Edges are colored if the k-mer count is biased toward a certain population. The black arrow indicates the location of the k-mer that explains the most variance of VNTR length in the EAS population. Source data are provided as a Source Data file.
