To associate variations 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/7667885/Associating Variations.png"/>
     <br>
</center>

The variations will appear under the Consensus Sequence:

<center>
     <br>
     <img src="/wiki/download/attachments/7667885/Associating Variations_1.png"/>
     <br>
</center>

To remove the association, select the Remove track from the view item in the Variations Area context menu.