To extract the BLAST hit region for a single hit:

1. Go to the BLAST Graphics. In case of a Multi BLAST, open the BLAST Graphics for the query of interest.
2. Right click the name of the hit for which you would like to extract the hit region.
3. Select Open Copy of Hit Region in New View in the menu that appears.

The sequence for the hit region will now open in a new window of the workbench. After which you can save the sequence by dragging it to the navigation area or by going to Toolbar | File | Save as.



 

To extract the BLAST hit regions for all hits:

1. Go to the BLAST Graphics. In case of a Multi BLAST, open the BLAST Graphics for the query of interest.
2. Then go to: Toolbox | Classical Sequence Analysis | General Sequence Analysis | Extract Sequences
3. The open BLAST Graphics will automatically be selected in the Extract Sequences wizard.
4. Click Next, choose to Extract to new Sequence list and finish the wizard.

You will now get a sequence list including all hit regions for the query.