DNA ploidy analysis is a useful tool to distinguish the partial hydatidiform moles (PMs) from complete hydatidiform moles (CMs) and nonmolar abortuses (NAs). DNA ploidy histograms of hydatidiform moles are sometimes difficult to interpret because of the uneven distribution of nuclei in the S-phase, simulating aneuploid peaks. In this study, we analyzed DNA ploidy histograms of 25 CMs, 16 PMs, and 28 NAs, with special reference to the accumulation of cells in the late S-phase using a high-resolution DNA image cytometry. All the gestational products demonstrated the accumulation of cells in the late part of the S-phase fraction. To objectify the observation, we compared the percentage of cells in the second quarter with that of the third quarter of the S-phase fraction. All the gestational products had significantly lower (P < 0.001) percentage of cells in the second compared with that of the third quarter of the S-phase. The mean ratios of the third quarter to the second quarter in CMs, PMs, and NAs were 1.9, 1.7, and 2.5, respectively. This was significantly different from that of highly proliferative endometrial carcinomas. The knowledge of this specific S-phase fraction distribution in molar and nonmolar pregnancy material is important when interpreting the DNA histograms. The possibility of hypoxia being the cause of this phenomenon is also discussed.