What changes when you own the pieces
A fund share has one cost basis. A hundred underlying positions have a hundred. In a year when an index finishes higher, individual constituents within it can still be down — and only the direct holder can act on those individual positions.
The same ownership enables customisation: excluding a holding that duplicates concentrated exposure elsewhere, or that an investor does not want to own. Each exclusion is a deliberate step away from the index, and the account will track it less closely as a result.