Direct evaluation of the performance and efficiency of disinfection tanks could more costly and time consuming. Mathematical model can be a good alternative to observe the hydrodynamic in a disinfection basin. Mathematical model was constructed from two hydrodynamic equations, namely the continuity equation and momentum equation. This research aims to study mathematical models of velocity, NRe, NFr, E.coli distribution and residual chlorine patterns in baffle channel disinfection tanks based on the hydrodynamic model (HPAd Model) mathematical formulation. Research includes the formulation of mathematical models whose results will be visualized with Mathlab, the acquisition of primary data using physical models, testing the model using Mathlab with the primary data input. The result of running the program input data showed variations in E.coli distribution patterns in the disinfection basin which explained that the channel from the inlet to the outlet there is an increase of flow velocity pattern (u), Reynolds numbers (NRe) and Froude numbers (NFr), but E.coli distribution and residual chlorine decrease. This research focus on pattern of hydrodynamic to disinfection process, thus simulation only showed E.coli can be removed around 30%-50% and residual chlorine 50-80% removal. Implementation of the HPAd model still in laboratory scale and effect of hydrodynamic conditions, then the research will continue to use optimum disinfectant dosage to remove organism in relation with hydrodynamic condition.