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Most calcium carbonate deposits are made up of the skeletal remains of marine plants and animals that have fallen to sediment on the bottom of shallow seas after their death. If the conditions are right, these sediments can build up over geological time to form extremely thick layers.
More about calcium carbonate geology. The most common crystal arrangement for naturally-occurring calcium carbonates is the hexagonal form of calcite. Less common is aragonite, which has a discrete or clustered needle, orthorhombic crystal structure.