From 33 RAPD primers had been used to assess genetic differences between 12 chrysanthemum mutant lines induced by irradiation and their three original varieties. With 495 PCR, a total number of 2,523 bands consist of 256 band types had been obtained, including 177 polymorphic band types (69.14 percent) and 79 monomorphic band types (30.86 percent). The smallest band size was about 200 bp and the largest band size was about 3,000 bp. Genetic similarity coefficients of 15 chrysanthemum lines/varieties ranged from 0.63 to 0.96. The mutant lines and original varieties have different genetic similarity coefficients in pair and can be clustered in to three main groups. The results also revealed that RAPD molecular makers not only be used to assess the differences among the radiomutant lines and the original varieties but also can be used as a effective tool to accurately identify mutant lines or groups of each original varieties and mutant lines induced from it. These data is useful for safeguarding and property register.