similarity in methylation of two different persons
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From a statistical perspective, it is not possible (generally) to say that two things are "the same" based on not finding differences. That said, I suspect that if you make a scatterplot of sample 1 vs sample 2, they do not lie on a line but have some scatter.
The details of how you "compared two samples" might help sort out why you did not find any differences.
I have used minfi package for preprocessing and seqlm to find differentially methylated regions.