Accurate prediction of longitudinal dispersion coefficient (LDC) can be useful for the determination of pollutants concentration distribution in natural rivers. However, the uncertainty associated with the results obtained from forecasting models has a negative effect on pollutant management in water resources. In this research, appropriate models are first developed using ANN and ANFIS techniques to predict the LDC in natural streams. Then, an uncertainty analysis is performed for ANN and ANFIS models based on Monte-Carlo simulation. The input parameters of the models are related to hydraulic variables and stream geometry. Results indicate that ANN is a suitable model for predicting the LDC, but it is also associated with a high level of uncertainty. However, results of uncertainty analysis show that ANFIS model has less uncertainty; i.e. it is the best model for forecasting satisfactorily the LDC in natural streams.