The proposed algorithm is based on the thinking of the frequent subtree mining repetitive DNA sequences in the body identified.The organization of DNA sequences in the new algorithm is different from with the others;organized a sequence as a tree

so we could avoid alignment as those traditional methods

then improved trees more simple that could be operating by frequent subtree mining

used a kind of algorithm for mining frequent subtree to learn these trees.This new algorithm could find out the repeated sequences which meet the threshold set directly

avoid the wasting of time result of splicing the short sequences.Designed the new technology "secondary identification"

which could find out the fuzzy repetitive sequences

also improved integrity of identification.Experiment show that our mothod improved the time efficiency compared with mainstream algorithms

especially learning to find out some long sequences and highly comparable on the integrity of identification.