Autoimmunity at the histone gene cluster. (A) Autoimmunity targets, which are both occupied and negatively regulated, are compared between the D. melanogaster (mel), hinge (hin), and chromo (chr) fusion proteins. (B) Log2FC expression of histone copies in transgenic rescues as compared with unrescued rhi mutants. Due to sequence similarity between histone gene copies as well as their coordinated regulation, estimated read counts were summed across all copies to calculate differential expression. (C) Sliding window of Rhi protein enrichment, as compared with input, across a single representative copy of the histone array (dm6, 2L: 21,482,367–21,487,518). (D) Sliding window analysis of small RNA coverage across a single representative copy of the histone array for D. melanogaster (mel), D. simulans (sim), chromo (chr), hinge (hin), and chromoshadow (sha) fusion rescues, as well as the unrescued mutant. (E) Log2FC piRNA abundance for each of the histone genes in transgenic rescues as compared with unrescued mutants.