Cloning in silico: wrong fragments order

1. Open "data/samples/Genbank/PBR322.gb".
2. Actions -> Analyze -> Find restriction sites.
3. Choose the enzymes AaaI and AagI.
4. Click "OK".
5. Actions -> Cloning -> Digest into fragments.
6. Click "Add All".
7. Click "OK".
   => The report contains 2 fragments:

   1: From AagI (27) To AaaI (939) - 913 bp
   2: From AaaI (944) To AagI (24) - 3442 bp

   But created annotations are named in different order: "Fragment 1" for 944-24 and "Fragment 2" for 27-939.

In addition, consider another way of fragments ordering: from the biggest fragment to the smallest one. See the request here:

Moreover I would name them in decreasing length order (fragment 1, the biggest) which is the criteria I've seen in these kind of analysis.