On occasion you may want to extract a sub alignment from a bigger alignment. For example you wmay only wanto extract the alignment for the sequences linked to a structure.

To extract a sub-alignment:

• An initial multiple sequence alignment must first be displayed in the graphical user interface.
• Bioinfo/Extraxt Sub-Alignment As Is
• Enter the name of the algienment from which you wish to extract a sub-alignment from.
• Specify the sequence order numbers you wish to extract - enter each number separated by a space.You can see the sequence order alignment number by selecting the order option in the alignment view options panel. See image below below.
• Click OK and the extracted sequence alignment will be displayed in a separate alignment tab.