Exporting Consensus Variations

To export consensus sequence variations of the assembly, select the Export Consensus Variations item in the Consensus Area context menu.

The following dialog will appear:

Select a file, mode, and file format. The available modes are: Variations, Similar, and All. Variations can be exported to a SimpleSNP or VCFv4 file.

Modify the consensus algorithm if required.

The consensus is exported with gaps if the Keep gaps checkbox is checked.

You can also select the exporting region. It can be either a Whole sequence, a Visible region, or a Custom region.

When all the parameters are set, click the Export button.

The consensus sequence is exported to the file, and if the Add to project checkbox is checked, it is added to the current project and opened.

The Export Consensus Variations feature is available when the reference sequence is associated with the assembly.