Fig. 1

Genomic variants within CD-1 with associated functional consequences. A Heatmaps of enrichment of replicates (Reps) 1–3 of the CTCF Male liver ChIP-seq data at irreproducible peaks. B Barplots comparing the percentage of irreproducible peaks (Fig. 1A) that contain a called CTCF motif near the summit, to the ratio of randomly shuffled regions that contain a CTCF motif. C Barplots comparing the percentage of CTCF motifs near the summits of irreproducible peaks that overlap with a non-uniform SNP to the percentage of randomly shuffled regions that overlap a non-uniform SNP. D Genome browser image of Reads per million (RPM)-normalized CTCF ChIP-seq coverage around a non-uniform SNP that occurs at a highly conserved G in a called CTCF motif. The CTCF motif is pictured at top, and the arrow points to the nucleotide with the non-uniform SNP. E The sequenced CTCF ChIP-seq reads from the indicated replicate that map to the non-uniform SNP displayed in Fig. 1D. The non-uniform SNP is highlighted. Nucleotides are colored according to their phred sequencing quality score as follows: black for 30 or above, orange: < 30, green: < 20, blue: < 10. F Barplots comparing the percentage of TF motifs near the summits of ATAC-seq peaks that overlap a non-uniform SNP to the percentage of randomly shuffled regions that overlap a non-uniform SNP. G, H Same as D, E, respectively, but for ATAC-seq data at a called Tcf7l2 motif. P-values in this figure were calculated by Fisher’s exact test, with cutoffs shown as follows: * p < .01; ** p < .001; *** p < .00001; **** p < .0000000001