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Firstly (and most importantly) the actual chemical makeup of the compounds in terms of the specific elements involved, and those elements respective properties. Secondly the temperature, pressure, etc. at which a substance is at will affect the properties of the substance. Thirdly what other chemical compounds are effecting the substance, obviously different substances will react differently depending on what are reactants are present.

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Q: What are the three main reasons that a substance may have different properties?
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