Removing Columns of Gaps

To remove columns containing a certain number of gaps, select the Edit ‣ Remove columns of gaps item in the context menu. The dialog appears:

There are the following options:

Remove columns with number of gaps — removes columns with a number of gaps greater than or equal to the specified value.

Remove columns with percentage of gaps — removes columns with a percentage of gaps greater than or equal to the specified value.

Remove all columns of gaps — this option is selected by default. It specifies to remove columns from the alignment if they consist entirely of gaps.

Select the required option and press the Remove button.