Cheddar Man belonged to the Mesolithic Western European hunter-gatherer (WHG) population. Around 4000 BC, they were replaced by
Neolithic farmers who emigrated from the Continent. The Neolithic people had an average of 10% ancestry from Western hunger-gatherers, but almost all of this ancestry came from Continental populations, rather than Britain's original Mesolithic inhabitants.
Nuclear DNA was extracted from the
petrous part of the temporal bone by a team from the
Natural History Museum in 2018. Around 85% of his ancestry can be modelled as coming from the c. 14,000–7,000-year-old
Villabruna genetic cluster, a major component of
Western Hunter Gatherers, with the remaining c. 15% deriving from the
Goyet Q2 cave cluster associated with the Late Upper Palaeolithic
Magdalenian culture. He is not closely related to the earlier Magdalenian individuals found in the same cave, whose ancestry is entirely from the Goyet cluster.
Phenotype Analysis of genetic markers, although limited by low
sequencing coverage, suggests (based on their associations in modern populations whose phenotypes are known) that he most likely had intermediate (blue-green)
eye colour, dark brown or black hair, and dark or dark-to-black skin, with no derived allele for lactase persistence. These features are typical of the Western European population of the time.
Uniparental haplogroups Cheddar Man's
Y-DNA belonged to an ancient sister branch of
Haplogroup I2-L38 (). ==Controversy and common misconceptions==