Residues that match well (according to the matrix) are colored in blue. The comparison window is highlighted by a purple box. The cursor can be dragged around (if you try to drag it beyond the edges of the dot window, the whole display will scroll instead). The alignment window's scrollbars have the same function. The cursor can also be moved with the keyboard with the arrow keys, and with '' (down right), '[' (up right), and ']' (down left). When the display is zoomed, the cursor will not be updated at every keystroke, but the alignment window will.