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The formation of exothermic centers was modeled with a Stochastic Reactor Model (SRM) to investigate their impact on HCCI combustion. By varying the exhaust valve temperature, and thus assigning more realistic wall temperatures, the formation of exothermic centers and the ignition timing was shifted in time. To be able to study the exothermic centers, their formation and their distribution, Scatter plots, standard deviation plots and Probability Density Function (PDF) plots were constructed on the basis of the data the SRM calculations provided. The standard deviation for the particle temperatures was found to be an useful indicator of the degree of homogeneity within the combustion chamber, and thus of how efficient the combustion process was. It was observed that when the standard deviation of the temperature was higher, the emissions of CO and of hydrocarbons present at the end of the closed cycle were higher.