All aligned reads read list is the master list that contains information on reads available in all the samples. The resulting read lists from any operations are added as child lists to all aligned reads read list. Hence, even if it was unselected during export, the tool creates a new “All aligned reads” read list to which any other child list (user selected list for export) is attached.
However, the number of reads in this new all aligned reads read list would differ. It only includes
read information from the read lists that were selected for export.