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The task dialog for Annotate variants contain contains three sections:  Assembly, Annotate with genomic features, and Annotate with known variants (Figure 1).  If variant detection was performed in Partek^® Flow^®, the Assembly will be displayed as text in the section, and you do not have the option to change the reference.  In the event that variant detection was performed outside of Partek^® Flow^®, you will need to select the appropriate Assembly utilized for variant detection in the drop-down list.  Assemblies previously added to library files (see Library File Management) will be available for selection or New assembly… can be utilized to import the reference sequence to library files from within the task.

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