The flow and bed change were analyzed using the CCHE2D model, which is a two-dimensional numerical model, at a confluence of the Namhan River and Seom River where deposition occurs predominantly after the “Four Major Rivers Restoration Project.” The characteristic of the junction is that the tributary of Seom River joined into the curved channel of the main reach of the Namhan River. The CCHE2D model analyzes the non-equilibrium sediment transport, and the adaptation lengths for the bed load and suspended load are important variables in the model. At the target area, the adaptation length for the bed load showed the greatest influence on the river bed change. Numerical simulation results demonstrated that the discharge ratio (Qr) change affected the flow and bed change in the Namhan River and Seom river junction. When Qr≤2.5, the flow velocity of the main reach increased before confluence, thereby reducing the flow separation zone and decreasing the deposition inside the junction. When Qr>2.5, there was a high possibility that deposition would be increased, thereby forming sand bar. Numerical simulation showed that a fixed sand bar has been formed at the junction due to the change of discharge ratio, which occurred in 2013.