Fig. 2.

Allele-specific barcode counts. a For the right metastasis, the number of barcodes associated with each allele of all phased heterozygous variants is shown for a 36-Mb genomic region including FGFR2. The allelic barcode counts are colored in black and red to denote belonging to haplotype 1 or haplotype 2 within each phase block. The locations of the duplication and deletion events, as identified by Long Ranger, are indicated. The barcode count densities are plotted for each amplified region before and after the deletion event (regions denoted by dashed rectangles). b Allele-specific barcode counts for each phased allele in the tumor-amplified region of FGFR2, using the normal sample to define allelic assignment to haplotype 1 (black) or haplotype 2 (red). The same haplotype (haplotype 1; black) is amplified in both metastases