Why do I owe taxes and I am the employee were taxes were taken from my paycheck per each payment? I should have a refund in the amount of $407 not the other way around!!

Taxes withheld from your paychecks is estimated to cover your total tax. When you file a tax return, your actual tax is calculated based on your total income. If you had too much withheld, you get a refund; if you didn't have enough withheld, you have a balance due.

I suggest you adjust your W4 with your employer so the correct withholding is calculated more accurately.