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BaZr(3)/YBa(2)Cu(3)O(y) quasi-multilayered films, in which the size and the spatial distribution of BaZrO(3) nano-particles were controlled, were irradiated using 200 MeV Xe ions along the c-axis direction. When the BaZrO(3) nano-particles were larger in size, the flux lines not captured by CDs, such as interstitial flux lines between CDs and double kinks of flux lines, can be pinned more effectively by the BaZrO(3) nano-particles, so that the J(c) enhances for high magnetic fields and high temperature. In addition, the inverse correlation between J(c) and n-value appears at high temperature in increasing magnetic field for the film with correlated rows of the nano-particles which might be curved off the c-axis. These suggest that the hybrid flux pinning depends not only on the combination of one-dimensional (ID) and three-dimensional pinning centers (3D-PCs) but also on the size and the spatial distribution of the 3D-PCs.