1. An image analysis apparatus comprising: correspondence determination means for determining a positional correspondence in a predetermined direction between two three-dimensional images representing a subject including a structure having periodicity in the predetermined direction, based on a criterion in which the structure having the periodicity contributes less; and correspondence correction means for correcting the correspondence determined by the correspondence determination means, based on a criterion in which the periodic structure contributes more, wherein the correspondence correction means corrects the correspondence by correcting a position in one of the three-dimensional images related by the determined correspondence in the predetermined direction to a position in the other three-dimensional image in the predetermined direction, within a range near the position in the former three-dimensional image in the predetermined direction.