Physical Vs Actual Stock and Variance - For Batched Items

Ideally physical and system stock should match. However in many cases it does not. What is the best way to post a reconciliation incase the item is batched? I understand that we can use ‘Stock Reconciliation Entry’ for non-batched items. For batched items it is suggested to use Stock entries of type ‘Material Issue’ or ‘Material Receipt’ to adjust the system stock.

The ‘Material Receipt’ and ‘Material Issue’ entries are created for normal stock movement in and out of the warehouse as well.

My question is, what is the best way to identify the stock reconciliation done manually and the stock variance? How do we differentiate between reconciliation entries vs actual movement entries?