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To have $14,663 in self-employment taxes, it seems as though the majority of your income is being counted as Self-Employment Income. 

Your housing allowance is not taxable for regular federal income taxes, but it is taxed the 15.3% Self-Employment Tax.  After you entered your W-2, if you selected Clergy, you would have been given the option to choose which income should be taxed with self-employment.  If you chose to pay self-employment tax on your housing allowance and wages, then this would explain why you have such a high amount of self-employment taxes. 

If SE taxes were withheld, be sure that you choose to only have the SE taxes withheld on your Housing Allowance if it is included in your W-2 and you did not have Medicare and social security taxes withheld already on the housing allowance.