At a rough guess, I would say there are hundreds of such prefixes. I'll help begin your project, however, with four of my favourites;
hemi-, semi-, demi- and halv-
...all of which mean 'half'
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The prefix for "letter" is "re-".
Mis- is a three-letter prefix meaning an error or mistake.
The prefix for 4 carbon atoms is "but-".
The three letter prefix for the word "all" is "mis-".
The two letter prefix which means outside is ex, as in the word, exhale, to breathe out.