Extended Data Fig. 3: Examples of co-occurring SNPs.

a, There are two SNPs, G and C in Genotype 1 (Col) and A and T in Genotype 2 (Ped). These are likely two sequencing errors in the root sample, a C at a non-SNP position and an A at a SNP position (both highlighted in blue circles). In the shoot sample we see potential evidence for mobility at the SNP level but in one case the second SNP is not present and in the other case another sequencing error has occurred (G). Three further sequencing errors (two As on the top left, one A on the right) are also present in the shoot. b, This example shows two positions, A and T in Genotype 1 (Col) and G and G in Genotype 2 (Ped), for which some reads support the alternate allele (green tick), whereas others are likely sequencing errors (red cross). In the latter case, one G is in the correct position but the other G is not present and a further mismatch (T) has occurred. See Figure 2 for further explanations. The images are annotated screenshots taken in IGV³⁷. Data taken from².