The Form 1099-R is reporting a rollover to a traditional IRA, not to a Roth IRA. If this Form 1099-R had been reporting a rollover to a Roth IRA, box 2a would show the same amount as is in box 1. This seems to be a common issue this year.
You must request that the 401(k) plan correct the Form 1099-R. If you actually requested that they initiate a rollover to a Roth IRA, they should comply, but often times will not. If they believe that you requested a rollover to a traditional IRA, they will almost certainly refuse to correct the Form 1099-R. If they will not correct the Form 1099-R, your only alternative will be to submit a substitute Form 1099-R showing the same amount in box 2a as is in box 1, explain your attempts to get the 401(k) plan to correct the Form 1099-R, and explain why the original Form 1099-R is incorrect. (I believe that this will prevent you from e-filing.)
