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The presented study involved designing a computer model of a sequencing batch reactor (SBR) at laboratory scale. The data pertaining to the technical aspects of the bioreactor and quality indicators of wastewater constituted the input for the employed simulation tool, i.e. GPS-X software package. The results of a simulation involving a 12-hour operation cycle are presented in this work; each cycle included 6 phases: filling, mixing, aeration, settling, decantation and idling (wasting of excess sludge). The simulations were carried out using two different modes of aeration. Concentration of dissolved oxygen (DO) was maintained at constant level of 2 mgO2/L using the PID controller in the first case. On the other hand, variation of DO concentration was employed in the aeration stage of the second variant, which was achieved using appropriately elaborated set point of oxygen concentration, considering the specific intervals in oxygen supply. The changes observed in DO concentration varied from 0.5 to 2.5 mgO2/L. This research proved that the second variant, involving variation of DO concentration, was characterised by reduced levels of pollution indicators in treated sewage, as well as lower consumption of electricity, both of which contributed towards improving the effluent quality and resulted in significant degree of dephosphatation.