A sound analysis apparatus stores sound source structure data defining a constraint on one or more of sounds that can be simultaneously generated by a sound source of an input audio signal. A form estimation part selects fundamental frequencies of one or more of sounds likely to be contained in the input audio signal with peaked weights from various fundamental frequencies during sequential updating and optimizing of weights of tone models corresponding to the various fundamental frequencies, so that the sounds of the selected fundamental frequencies satisfy the sound source structure data, and creates form data specifying the selected fundamental frequencies. A previous distribution imparting part imparts a previous distribution to the weights of the tone models corresponding to the various fundamental frequencies so as to emphasize weights corresponding to the fundamental frequencies specified by the form data created by the form estimation part.