Origination charges not reported on 1098

I took out a construction loan to build a house in 2015. My HUD-1 Settlement Statement looks as follows:

Line 801. Origination Charge                 $3525.70
Line 802. Points                                      $9430.00
Line 803. Adjusted Origination charge  $12955.70

However, on the 1098 the lender sent me it only has the $9430 reported in Box 2. The origination charge does not include any non-deductible items such as appraisal fees, etc. My first question is, do I deduct the $12,955.70 even though the 1098 doesn't reflect that number?

IRS pub 530 says to report home mortgage interest not reflected on the 1098 on line 12 of Schedule A. The online software does not allow me to separate the $3525.70 and the $9430. How do I enter this info into the software so it is reported on both Line 11 and Line 12?

Thanks