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I think I would go for the 40hp Yamaha.... The boat is rated for 40hp and that to me is a better choice. I don't think a 25hp would be enough for me on my prior 13'....
I had the same motor you have on your 13' and I wouldn't have wanted any less..
Maybe someone else here might have that Yamaha engine on their 13' and can tell us more...
Unfortunately, the E-tec 40hp has the same block as the 50 and 60hp.... That's why it is so heavy.