From: amwaterhouse
A newly calculated tree will be displayed in a new tree viewing window. In -addition, a new entry with the same tree viewer window name will be added in the Sort -menu so that the alignment can be reordered to reflect the ordering of +addition, a new entry with the same tree viewer window name will be added in the Sort +menu so that the alignment can be reordered to reflect the ordering of the leafs of the tree. If the tree was calculated on a selected region of the alignment, then the title of the tree view will reflect this.