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The discrepancy is due to daylight savings time. (And there are differences for many hours during the summer, not just near midnight.) Delete this object and the values will align perfectly:

RunPeriodControl:DaylightSavingTime,
April 7,                 !- Start Date
October 26;              !- End Date

If this is measured data, then you want DST to be off, because it's likely in synch with the sun using standard time. If this is calculated data, then you might want the values to be shifted for DST, but that can get confusing.