In order to study of nucleotide variation of wild sheep populations of Tangsayad and Korayi guardianship regions, individual feces were taken from two populations. Then, in order to genetic comparison between two populations using D-loop region and Cyt-b gene of mitochondrial genome, DNA was extracted. After amplifying by PCR, the samples were sequenced. Then, sequences were analyzed using MEGA4 software. Results indicated that Dloop region has 552 base pair and Cyt-b gene has 589 base pair and no significant genetic variation was observed between the two populations.