The survey of Lyman $\alpha$ emitters (LAEs) with Subaru Hyper Suprime-Cam, called SILVERRUSH (Ouchi et al.), is producing massive data of LAEs at $z\gtrsim6$. Here we present LAE simulations to compare the SILVERRUSH data. In 162$^3$ comoving Mpc$^3$ boxes, where numerical radiative transfer calculations of reionization were performed, LAEs have been modeled with physically motivated analytic recipes as a function of halo mass. We have examined $2^3$ models depending on the presence or absence of dispersion of halo Ly$\alpha$ emissivity, dispersion of the halo Ly$\alpha$ optical depth, $\tau_\alpha$, and halo mass dependence of $\tau_\alpha$. The unique free parameter in our model, a pivot value of $\tau_\alpha$, is calibrated so as to reproduce the $z=5.7$ Ly$\alpha$ luminosity function (LF). We compare our model predictions with Ly$\alpha$ LFs at $z=6.6$ and $7.3$, LAE angular auto-correlation functions (ACFs) at $z=5.7$ and $6.6$, and LAE fractions in Lyman break galaxies at $5Comment: PASJ in press, 30 pages, 20 figures