When moving forward (most) fish will use their tail. The pecs are used to steer and stop. When hovering, they will move the pecs rapidly while not doing much with their tail. The alternating of the pectorals is usualy seen when they are steering, stabilising or when trying to swim backwards. Rapid movement of the pectorals whilst staying still is often an indication of stress (coupled with fast, heavy breathing). This is based in particular on one of my swordtails so I would expect similar behaviour from a molly. Most fish use their fins this way.