Yes it would. If the amounts on your personal tax return don't match the amounts on the company's IR56B then I would expect an investigation from IRD. In the companies I have worked at here it was normal practice for them to give each employee a copy of the IR56B that they filed regarding them. You need to try to get that from your employer.
It is in the company's interests to give you this because if the authorities discover the illegal employment then they will be prosecuted as well as you.