A lot of factors can affect the performance of an upgrade, like the table contents, DB size, tp and R3trans versions and so on.
The first check is to make sure that the latest versions of tp and R3trans are in use.
There are some phases like PARCONV_UPG, XPRAS_UPG and SHADOW_IMPORT that are phases of high database usage.
These phases perform different actions on the DB so it is important to rule out slow DB accesses to the DB initially.
On the other side, the reason could also be that many very big tables were handled, and therefore the tunning should be more focused on the applications analysis, archiving and other DB-realted tasks.
Make sure to check the following SAP notes, which deal with Oracle peformance:
Regarding SAP software performance, these are the notes that can be checked in order to pinpoint and solve most of such issues:
Some other points to consider related to upgrade peformance issues:
If you have any other doubt make sure to check the SCN community of Software Logistics (http://scn.sap.com/community/it-management/alm/software-logistics/).
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