Urban rivers play an important role in maintaining the urban aquatic ecological environment, and there are bound to be differences in the water environment quality and pollution sources due to different locations of urban rivers. Therefore, this paper selects the urban river (Tuo River) and the suburban river (Bian River) in Suzhou City, Anhui, China, as the research objects. Based on the understanding of the hydrogeochemical characteristics of these two rivers, the self-organizing map is used to identify the main control factors that affect the water quality of the two rivers. The results showed that both the Bian river and Tuo river were weakly alkaline. The average content of conventional ions in Tuo river is less than that of Bian river (except HCO₃⁻); the water of Bian river was of Na–SO₄–Cl type, and the water of Tuo river was mainly of Na–HCO₃ type, with the minority was of Na–SO₄–Cl type; Silicate weathering is an important source of conventional ions in the water of these two rivers; agricultural non-point source pollution is the main source of pollutants in Bian river, while Tuo river was mainly affected by natural factors, and human activities had little impact.