The purpose of this study was to develop two dimensional contaminant transport numerical model by finite element method. The developed model system was tested for water quality analysis when contaminants from tributaries and sewage treatment Plants flow into the main river. In this study, the model was to perform calibration for reasonable parameter production and verification for reliability and accuracy. And, the proposed model was applied on the downstream of Han river using calibrated parameters. These results represented real con taminant distribution profile along the channel, and produced the good agreement in comparing calculated vague with measured value.