A laboratory measurement with acoustic Doppler velocimeter (ADV) was used to investigate the flow through a Y-shaped confluence channel partially covered with rigid vegetation on its inner bank. In this study, the flow velocities in cases with and without vegetation were measured by the ADV in a Y-shaped confluence channel. The results clearly showed that the existence of non-submerged rigid plants has changed the internal flow structure. The velocity in the non-vegetated area is greater than in the vegetated area. There is a large exchange of mass and momentum between the vegetated and non-vegetated areas. In addition, due to the presence of vegetation, the high-velocity area moved rapidly to the middle of the non-vegetated area in the vicinity of tributaries, and the secondary flow phenomenon disappeared. The presence of vegetation made the flow in non-vegetated areas more intense. The turbulent kinetic energy of the non-vegetated area was smaller than that of the vegetated area.