Perhaps to clarify a bit further, each "program" is like a separate clock. The only thing they have in common is knowing what the date and time are.
Each PROGRAM has it's own start time(s), individule run times per zone, and days to run. ONE start time per day usually suffices for most sprinkler applications.
Any zones assigned to a specific PROGRAM start on the assigned days and run SEQUENTIALLY after the program starts on those given days.
Like Boots sez.... Don't fall into the trap of trying to assign a start time for each zone. It doesn't wotk that way.
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