Extended Data Fig. 4: GC content along chromosomes and near telomeres for Smic1.1N, and for Hi-C domain boundaries for Smic1.0 and Smic1.1N.

a, GC content fluctuations along chromosomes 4, 26, and 59 measured in 10 kb windows for Smic1.1 N assembly. b, GC content along regions 2.5 Mb from telomeric ends, averaged for chromosomes of sizes of at least 5 Mb and measured in 10 kb windows for Smic1.1 N. GC content decreases as distance to telomeres increases. c, GC content around domain boundaries for Smic1.1 N. Values are averaged across all domain boundaries in the genome for regions 30 kb upstream and downstream domain boundaries and in 100 bp sliding windows. Dotted lines delimit position of the 10 kb boundaries. A decline in GC content is observed at domain boundaries that define Hi-C domains. d, GC content around domain boundaries found in ungapped contigs for Smic1.0. This set of boundaries (each a 10 kb region) was located at least 10 kb from a contig end. Values are averaged across all domain boundaries in the genome for 30 kb upstream and downstream domain boundaries and in 100 bp sliding windows. Dotted lines delimit position of the 10 kb boundaries. A decline in GC content is observed at domain boundaries that define Hi-C domains. e, GC content around domain boundaries found in ungapped contigs for Smic1.1 N. This set of boundaries (each a 10 kb region) was located at least 10 kb from a contig end. Values are averaged across all domain boundaries in the genome for regions 30 kb upstream and downstream domain boundaries and in 100 bp sliding windows. Dotted lines delimit position of the 10 kb boundaries. A decline in GC content is observed at domain boundaries that define Hi-C domains. f, GC content of chromosomes, genes, LINEs, and repetitive elements for Smic1.0. Suggesting that GC content is driven by genes.