I personally think Kobe is better because he made himself into what he is now.
MJ was way more athletically gifted than Kobe was.Jordan was bigger,faster,and stronger than Kobe.Jordan also had a 40+ inch wingspan compared to Kobe's 37inches. Kobe's game has made up for what he lacks physically and athletically. Kobe is easily the hardest working basketball player of ALL TIME. Everyone knew how good a player Jordan was and would be. Kobe his rookie season averaged 7ppg ten years later he averages 35ppg one season.
Put each of their Basketball skills into a neutral identitical body and Kobe would be better.