I completed my tax returns on 04/24/21. I got a message saying I had a penalty due to excess Roth IRA contribution. This is inaccurate and needs to be corrected. How?

I didn't overcontribute, the confusion is due to a CONVERSION from a different retirement account.  I did not exceed the limit.  I spoke to my financial advisor about this.  The taxes have already been filed and I've received my refunds, but I do not want the penalty obviously.  How can I correct this?