Query browser compare

I am using query browser 1.2.12  I am trying to use the compare feature and wondering about the following.

The record sets I am comparing are quite large, 390000 rows.  In the initial queries I order by client_number however when I compare the order changes.

Is there a reason for this, can it be changed? Is there a way to just show the records that are different.  The highlighted records are too few and far between to scroll through such a large recordset to locate them.

Regards

Lachlan