Abstract: Complete sequence of mitochondrial DNA（mtDNA） control region was sequenced in 43 individuals from 7 indigenous goat（Capra hircus）breeds（groups）in Sichuan province. The complete sequence of mtDNA control region was 1 212 or 1 213 base pair, and the content of A+T（59.9%）was higher than that of G+C（40.1%）significantly. 74 sites were polymorphic and all of these sequences were neutral mutation. All sequence polymorphic sites defined 27 haplotypes. High nucleotide diversity（1.868%）and haplotype diversity（0.966） were manifested. These results suggested richer genetic diversity within Sichuan indigenous goat populations and genetic divergence among them. The Kimura 2-parameter distance among breeds（groups）varied from 0.001 7 to 0.030 6. Phylogenetic unrooted trees constructed with neighbourjoining methods showed two maternal origins in Sichuan indigenous goats. More detailed studies should be continued to indicate whether the two maternal origins are Capra aegagrus and Capra falconeri.