Abstract: The accelerating genetic algorithm based fuzzy analytic hierarchy process is used to determine the weights of the influencing factors.The classified subsets of the history samples of regional ecological footprint and its influencing factors are constructed using the frequency analysis method.Set pair analysis method is used to quantitatively compute the distance between the nonce and the classified subsets vectors from the view of identical,discrepant and contrary degree，the weighted average of the center values of the classified subsets can be regarded as the predicted value of the nonce regional ecological footprint，and then a scheme of set pair analysis classified prediction method(SPA-CP) is established.The results show that the physical concept of SPA-CP is clear，its computation method is convenient，and its precision is high.