Extended Data Fig. 4: Replication time correlates with mutation rate partly independent of transcription.

a-c, The genome was partitioned into 21 quantile bins of replication time, relative enrichment (shared x-axis, RE = (early−late)/(early+late)) a, Percent of genic nucleotides in each quantile bin, stratified as transcribed (red, >1 transcript per million (TPM) in P15 mouse liver) or non-transcribed (grey). b, Relative enrichment of strand-biassed transcription across replication time bins (RE = (forward−reverse)/(forward+reverse)) calculated using the number of nucleotides contained within the transcription strand resolved genomic span of expressed genes (panel a). c, Mutation rates (y-axis) for the whole genome (black, 95% C.I. whiskers). A linear regression 95% C.I. shown as a corresponding shaded area. Equivalent analysis is also shown, restricted to only expressed genes (mid-grey) and non-genic regions (light-grey).