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Fig 1.

Location of the site of Puerto Real and other locations mentioned in the study (original map by N. Delsol, cartographic data from USGS EROS http://eros.usgs.gov/, source: NASA/METI/AIST/Japan Spacesystems and U.S./Japan ASTER Science Team).

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Fig 2.

Picture of the horse specimen R0121-03 (FM-EAP Catalog Number 02951527).

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Fig 3.

Median joining network of the 85 equid specimens (including Equus asinus as an outgroup and the Puerto Real horse).

Numbers on the branches indicate the number of mutations separating each mitogenome.

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Fig 4.

Detail of the haplogroup A phylogeny.

The complete phylogeny of all 85 sampled individuals can be found in S2 Fig.

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