The Variants section contains options affecting how variants are displayed in the Analysis view when Variants tracks are applied. To access it, click on the expand bar entitled Variants in the Style panel, or choose View > Style > Variants.
Most of this section consists of a list of variant types, with a color chooser box and a drop-down menu to the right of each. To change the color for a type of variant, click on its color chooser box. To change the shape used to represent a type of variant, make a selection from the drop-down menu.
The same decisions can be made regarding how the Reference allele is represented.
Use the Icon size slider if you want to increase/decrease the size of the icons in the Analysis view.
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