The invention relates to a method for identifying SNP genotype-based monozygotic twins, fraternal twins and second polar body participated fertilized twins. The method comprises the following steps: analyzing the SNP genotype similarity level of father being homozygote and mother being heterozygote in twins, the twins are determined to be fraternal twins if the similarity level is about 50 percent, otherwise, the twins are determined to be non-fraternal twins if the similarity level is more than 90 percent. If the twins are determined to be non-fraternal twins, further analysis is required: the SNP genotype is completely the same in the twins, the twins are determined to be monozygotic twins; and otherwise, if the similarity level x is more than 90 percent and less than 100 percent, the twins are determined to be second polar body participated fertilized twins. The novel and smart identification method is provided for the first time, the blank for identifying monozygotic, fraternal andsecond polar body participated fertilized twins in medical and expert testimony, has high sensitivity and high accuracy, is easy in sample acquisition, simple in operation and high in analyzing efficiency, and is widely applicable to the fields of expert testimony / medical identification and the like.