'Waters' particularly signify the spiritual parts of a person, or the intellectual aspects of faith, and also their opposites.

'The waters above the firmament,' as in Genesis 1:7, signify the knowledges in the internal self, and 'the waters beneath the firmament' signify the knowledges of the external self.

'Waters,' as in Ezekiel 47:9, refer to the New Jerusalem, and they signify spiritual things from a celestial origin.

'Many waters,' as in Revelation 17:1, signify truths of the Word adulterated. 'Waters' or 'rivers' signify spiritual, rational, or scientific things pertaining to truth.

'Waters … that go softly,' as in Isaiah 8:6-7, signify spiritual things, and 'waters … strong and many,' signify falsities.

'Waters,' as in Psalms 104:3, signify divine truths.

'Waters' signify truths in the natural self, and in the opposite sense, falsities.

'The waters were dried up from off the earth,' as in Genesis 8:7, signifies the apparent dissipation of falsities.

(References: Apocalypse Explained 17; Apocalypse Revealed 50; Genesis 8)

In Revelation 19:12, this symbolically means that what the Word is like in its spiritual and celestial senses, no one sees but the Lord, and the person to whom He reveals it. (Apocalypse Revealed 824)