Let $X$ be a Calabi-Yau variety over $K$ and let $\mathscr{X}$ be a good dlt-model of $X$ over $R$ such that $\mathscr{X}_{k}$ is reduced. Assume that $K_{\mathscr{X}/R}\sim 0$. Then every stratum of $\mathscr{X}_{k}$ is normal, and the strata of $\mathscr{X}_{k}$ are precisely the log canonical centers of the pair $(\mathscr{X},\mathscr{X}_{k})$ contained in $\mathscr{X}_{k}$.