Federal tax due

I completed my taxes and submitted, having the amount due pulled from my bank account on the 13th. I went back in a few days later and it ran updates and told me the amount owed was around $1,300 less than originally calculated. It stated that the return was already filed and the amount that would be pulled from my account would be the new amount. The 13th came and they withdrew the original amount from my account, why did this happen, and will that be refunded to me?