The Chayuqi shoal section in the upper reaches of the Yangtze River is the rapids and shallow shoal at the outlet of the branch.It is difficult for ships to drive upstream，and maintenance dredging is required every year to maintain unobstructed.According to the characteristics of the rapids at the entrance of the Chayuqi and the shallowness of the transition section，we study the flow characteristics by the plane 2D flow mathematical model，and propose corresponding regulation measures.The results show that the built longitudinal dike of Chayuqi should be removed and the regulation measures to enhance the scour duration of the shallow area can effectively alleviate the navigation obstruction.The characteristics of the rapids disappear after the implementation of the regulation scheme，and the average velocity in the transition section near the multi-year average flow level increases，which is beneficial to reduce the siltation in the shallow area，and the channel scale meets the planning requirements.