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Prior HCCI optical engine experiments utilizing laser-induced fluorescence (LIF) measurements of stratified fuel-air mixtures have demonstrated the utility of probability density function (PDF) statistics for correlating mixture preparation with combustion. However, PDF statistics neglect all spatial details of in-cylinder fuel distribution. The current computational paper examines the effects of spatial fuel distribution on combustion using a novel combination of a 3-D CFD model with a 1-D linear-eddy model of turbulent mixing. In the simulations, the spatial coarseness of initial fuel distribution prior to the start of heat release is varied while keeping PDF statistics constant. Several cases are run, and as the initial mixture is made coarser, combustion phasing monotonically advances due to high local equivalence ratios that persist longer. The effect of turbulent mixing is more complex.