This semidistributed hydrological model was used to estimate the freshwater components blue water flow (i.e., water yield plus deep aquifer recharge), green water flow (i.e., actual evapotranspiration), and green water storage (i.e., soil water) were estimated at a sub-basin level with monthly resolution for the whole of Africa. Using the program SUFI-2 (Sequential Uncertainty Fitting Algorithm), the model was calibrated and validated at 207 discharge stations, and prediction uncertainties were quantified. The presented model and its results could be used in various advanced studies on climate change, water and food security, and virtual water trade, among others.