1. An analysis apparatus which analyzes chromosomal states based on amounts of expression of genes, the analysis apparatus comprising: a probability distribution storage unit for storing a probability distribution of amounts of expression of genes for each of a plurality of chromosomal states, when each gene, which is arrayed on the chromosome, assuming one of the chromosomal states whose distributions of amounts of expression are different from others; a state transition probability supply unit for supplying a state transition probability indicating a probability in which, with regard to each gene arrayed on the chromosome, when one gene arrayed on the chromosome assumes any one of the chromosomal states, a certain gene arrayed next to the gene assumes any one of the chromosomal states; an expression amount input unit for receiving an expression amount measurement value that is a measurement value of the amount of expression for each gene on the chromosome; and a state detection unit for detecting, from combinations of chromosomal states that the plurality of genes on the chromosome assume, a combination that maximizes a probability that the amount of expression of the plurality of genes come to be the expression amount measurement value, based on the probability distribution and the state transition probability.