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It depends what is it pulling out. A lot of the brown stuff comes from feed and fish poo, in your case with a new tank I think the skimmer is pulling mostly microalgae stuff thus the green color.
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Did I write what I wrote? What the heck am I talking about! Well..... Nevermind.
Current Tank Info: 225 gal reef, DSB, 40 g sump w/ LRT100 return, 37 g pre-sump, 3 MH 250 W 15K, 4 96 W PC dual actinic,ETS 1500 Skim.w/LRT70, 20 lb Ca R., 40 W UV, 1/3 HP chiller, two 350 W Htrs, Neptune II Cont., 330 P LR/ 330 P LS. 55 gal Refugium
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