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The battle with Zaganaga requires frequent use of the Sand Rod. Most of the battle area is covered in sinking sand. If Link falls, he takes damage. Zaganaga burrows himself under the sand and comes up on top of a pillar. Link must use the Sand Rod in order to make his way towards Zaganaga and slice him with his sword. Meanwhile, Zaganaga summons minions that fly around the area and try and hit Link, causing him damage.
After Zaganaga takes so much damage, he begins his second phase. He opens up his "petals," revealing many eyes inside. In this phase, Zaganaga gets a new attack. He can now shoot a giant beam towards Link. However, once he aims with the beam, he does not move his shot until he resurfaces again, allowing Link to get behind or to the side of him in order to deal him damage. A few more hits with the sword and Link finally slays Zaganaga.