I haven’t seen anybody else explicitely pointing it out: if you can’t write chemicals formulas with subscripts, you should instead use regular number, not superscripts.
H2O or CO2 are fine. H₂O and CO₂ (I hope these formulas are displyed correctly – with the “2” a bit lower and smaller than the letters) would be better, but “H²O” and “CO²” look terribly wrong to chemists.
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