maybe you should find this paper from Nature (https://www.nature.com/articles/s41588-018-0223-8) very interesting because describing in part what you're searching for.
Frederic Lepretre , hi Frederic, thanks for the very interesting literature. But I was looking for the SNPs among inbred C57Bl/6J mice (C57Bl/6J vs C57Bl/6J),
and not among different-strains vs C57Bl/6J.
Maybe you know any literature to look for SNPs among C57Bl/6J vs C57Bl/6J miceß