To associate a reference sequence with the assembly, open the sequence (the sequence must be loaded) and drag it to the Assembly Reference Area:

<center>
     <br>
     <img src="/wiki/download/attachments/4227538/Associating Reference Sequence.png"/>
     <br>
</center>

The sequence appears in the Reference Area:

<center>
     <br>
     <img src="/wiki/download/attachments/4227538/Associating Reference Sequence_1.png"/>
     <br>
</center>

To remove the association, select the Unassociate item in the Reference Area context menu.