The microstructural origin of magnetic anisotropy in a magnetron in-line sputter-deposited CoPtCr/Cr magnetic thin-film disk was examined by mapping magnetic properties and microstructure. The film coercivity (H(c)), remanence-thickness product (M(r)delta), and coercivity squareness (S*) were determined as a function of radial (r) and angular (theta) co-ordinates using a transfer curve magnetometer. The observed variations in H(c), M(r)delta, and S* across the disk were 85 Oe, 0.15 emu/cm2, and 0.03, respectively. The angular variation in magnetic properties showed a sinusoidal pattern with the maxima corresponding to the regions where the tracks were parallel (theta=270-degrees) to the pallet movement direction. High-resolution scanning transmission electron microscopy showed subtle differences in the Co-alloy grain morphology and crystallographic orientation between theta=270-degrees and theta=360-degrees locations. The grains were equiaxed in general except for a small fraction of grains elongated in the direction of pallet movement. Lattice images clearly showed that about 45% of the Co-alloy grains had in-plane c axes and a preferred alignment of the c axes along the texture groove. A greater preference for the c axes to lie along the texture line was observed for the theta=270-degrees location. A coherency stress-based model is proposed to explain the preferred c-axis alignment. While the crystalline anisotropy appears to be the main factor responsible for the magnetic anisotropy, both crystalline and shape anisotropies contribute to the magnetic anisotropy variations.