The high resolution sequence stratigraphy of the Toutunhe formation of the Middle Jurassic in Fudong slope area of Eastern Junggar Basin is studied through high resolution sequence stratigraphic theory, which ten short term base level cycles, three middle term base level cycles, and one long term base level cycles can be identified. Interlayer heterogeneity, intralayer heterogeneity and plane heterogeneity are searched under middle term sequence stratigraphic framework , the results show that there are some obvious regularity exists in macro heterogeneity of reservoirs, especially in MSC2. Sandbodies of reservoirs in MSC2 have the heaviest heterogeneity, and sandbodies with large thickness in the early period of the base level rise and in the late period of the base level fall have good properties, where are favorable to be explored and developed. Above all, heterogeneity of every sequence is affected by values of A/S.