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Supplementary data 58-114

HaploImages for each of the 57 candidate sweeps (q < 0.01). The images depict the pseudo-haplotype calls at each locus in the sweep window and flanking region, for each population used in this study. Majority alleles, i.e. those alleles most likely to be associated with the sweep, are shown in yellow, and minority alleles in black, with missing data being white. Only individuals with no more than 50% missing data are shown. In addition to the populations scanned for sweeps using SweepFinder2, haplo-images for five Late Pleistocene Eurasian AMH samples (Ust'-Ishim, Kostenki14, GoyetQ-116, and El Mirón) were also included to help determine the earliest timing of the selection pressure for each sweep. Note that only Ust'-Ishim had sufficient coverage to make diploid calls (i.e. both alleles are present at each locus), whereas the four remaining samples use pseudo-haploid calls.

Funding

Adaptation and diversification of the first peoples of Sahul

Australian Research Council

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Palaeo-population genomics: studying adaptation using ancient human DNA

Australian Research Council

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Using ancient microbiomes and genomes to reconstruct human history

Australian Research Council

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