To understand the quantitative properties of dynamic heterogeneities on glassy particle systems, we use the theoretical scheme of bond-breakage which can detect configuration rearrangements corresponding to the structural relaxations. It is compared with the four-point correlation scheme for the results of binary mixtures with molecular dynamics simulations of two dimensional NVE ensembles. From the comparisons in the systems, we find superpositions of heterogeneity of configuration rearrangements and that induced by low-frequency vibration modes. The bond breakage scheme detects the long-time relaxations without short-time vibrations. The four-point scheme detects the mixed dynamics of the both. We find that the results on four-point scheme are sensitive to the influence of such vibration modes which gives rise to detectable system-size effects in physical properties.