If you look at the additional variable "Number of Deleted Observations" where logical and physical vary I think you'll get a better understanding of what is going on.
I believer you are likely looking for Logical for further processing.
Since are there are two types of counts then the count desired depends on what your are doing.
Unless you are doing manual operations on your data, such as delete row in Viewtable, you'll likely have both values the same.