Stroke mortality is low in the Western Japan, while high in the Eastern Japan. In this study, we performed brain magnetic resonance imaging (MRI) in participants of cohort studies at Kusatsu (west) and Ohasama (east). First, we conducted MRI in same participants living in Ohasama at both Kusatsu and Ohasama facilities to investigate validity comparing West and East. Kappa coefficients between two facilities were about 0.60 in lacunar infarction and cerebral microbleed, 0.46 in white matter lesion. Then, we compared people in Kusatsu with these in Ohasama aged from 60 to 89 by age. Prevalence of lacunar infarction and that of cerebral microbleed were higher in Ohasama than in Kusatsu, and we thought that it might be occurred because people in Ohasama had higher blood pressure and percentage of medication of hypertension than Kusatsu in baseline characteristics. Meanwhile prevalence of white matter lesion was higher in Kusatsu than in Ohasama. That reason was not clear.