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Is that a Duncan coral?
Looks like brown slime desease.
Killed a real nice piece of Duncan on me 2 years ago.
I dipped in coral and even cut off dead heads but still lost the fight over a month and half.
If you can wave your hand over that coral and that brown stuff floats away, it's brown jelly disease. It's not the same thing that's on the glass though.
Don't know if your able to, but, the easiest way to get rid of that stuff is to dip the enitre rock in hydrogen peroxide, or just bleaching it would do the trick also, but would kill everything on it.
Think this is a better picture of the brown spots, they are like lots of individual spots that seem to move about. I definitely have seen them on the glass too
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