Supplementary information cited in the main text.

Table A. List of cell lines used in this study. Table B. List of sequenced samples and sequencing statistics. Table C. Catalog of all detected and post-filtered SNVs. Table D. Catalog of all close mutation pairs. Table E. Catalog of close mutation pairs containing indels. Table F. De novo NMF components of cisplatin treated cell lines (Fig 3A). Table G. De novo NMF contributions of cisplatin treated cell lines (Fig 3B). Table H. De novo NMF components of DT40 samples (Fig 5C). Table I. De novo NMF contributions of DT40 samples (Fig 5D). Table J. ENA accession numbers for archived sequencing data. (XLSB)