The research aims to compare results of algorithm for solving allocation problem in multi-stage rice transportation between formulation of mathematical model with computation by Lingo V.11 and application of Differential Evolution (DE). The research was conducted in two stages: 1) comparing efficiency of the two employed applications in terms of economic and 2) comparing for minimum computation time. The proposed algorithm was tested with problems in six simulated case studies. Results show that in terms of economic DE did not generate better solutions than Lingo V.11 at an average of 0.525%. However it used faster response time at an average of 206 minutes when compared to Lingo V.11.