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. Author manuscript; available in PMC: 2024 Dec 9.
Published in final edited form as: Mol Ecol Resour. 2023 Feb 15;23(5):1002–1013. doi: 10.1111/1755-0998.13764

Figure 1.

Figure 1

A schematic showing the proportions of reads in four different categories. In samples 1, 2 and 3, the first two categories of reads cannot be distinguished by mapping because (organellar) mitochondrial reads and NUMT reads carry the same SNP allele (as an example, the A allele). Only the n reads carrying an alternative allele (T, G or C) can be classified as of NUMT origin. Sample 4 had another (T, green) allele in its organellar mitochondrial genome; hence, in this case, the k orange reads carrying the alternative alleles (A, G or C) can be classified as NUMTs. We wish to estimate the ratio of NUMTs compared to other nuclear DNA, v/N, but this ratio cannot be observed directly in any one of these samples. Fraction m denotes all reads with sequence similarity to the mitochondrial genome.