Example Gap Strip

Goal: You want to remove all columns from your alignment that contain one or more gaps. This is called gap stripping.

Data:The alignment in the box below contains a single gap in column 2, and all gaps in column 4.

Settings: The tolerance for gaps has been set to zero, so both these columns will be removed ("stripped") when you press the Run button.

Alignment:

a-t-gacgatcgat act-ggcgatcgat act-gacgatcgat gct-gacgatcgat

Options:

Gap character(s)	Tolerance for gaps (%)
Show deleted columns	Preserve deleted columns
Codons: delete columns in groups of 3	Reading frame of alignment: 1 2 3