How can I obtain the same quantities in matlab ode45 and simulink ode45?

I'm solving the equations of motion in Matlab and Simulink for quadcopters. I use in Matlab the solver ode45 twice, one to obtain quantities in body axes and one to get the same in earth axes. About Simulink i don't use the blockset "Euler 6DoF" but i write the same equations using two integrators for the integrations. Whatever method in simulink, ode3,ode4,ode5 fixed step or default ode45 never changes the results. In Matlab I get almost the same numbers but also if I use 1million time step, and there's ever a difference. Is it normal that ode45 in simulink with less step size works better than matlab ode45 with much more steps?