A data analysis apparatus 10 includes; an align unit 11 that acquires a pair data of a first data indicating a characteristic of a specific region and a second data corresponding to the first data and indicating another characteristic of the specific region, and aligns the first data in order of their sizes, a classification model generation unit that groups the pair data based on a characteristic of an order distribution of the first data after alignment, classifies the pair data, and generates a classification model for classifying the pair data using the classification result, a regression model generation unit that performs machine learning for each group, using the first data constituting the pair data and the second data constituting the same pair data, and generates a regression model indicating a relation with the first data and the second data.