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Mating system characterizations have been hindered by difficulties in accurately assigning parentage to offspring. We investigated the relationship between social assemblages and mating relationships in a territorial harem polygynous mammal, the Gunnison's prairie dog, using a combination of behavioral and molecular analyses. We demonstrate multiple paternity and an extraordinarily high incidence of extraterritorial fertilizations (i.e., 61% of all progeny), in combination with the existence of female kin groups. On this basis, we conclude that social assemblages alone provide a poor description of the Gunnison's prairie dog mating system, and suggest several potential reasons for the maintenance of territoriality...