We study the lattice dynamics of photoinduced structural change by a model of localized electrons coupled with an optical phonon mode. We found that the deformation of individual molecular units obey the large deviation statistics, and found that we can discuss the dynamics before/after structural change separately. We also found that the characteristic vibrational frequencies differ between the molecular units, which reflects the details of the dynamics of the nucleation processes. Thus, by studying the distribution of the relevant phonon frequencies by transient vibrational spectroscopy, the dynamical properties of photoinduced structural change will be experimentally revealed.