A business/industry gets subsidies and is able to grow faster than it would have or just simply grow where nothing would before. Those businesses are then subject to taxes which the government collects and puts to use, which then benefits the populace at large.
But the point of a subsidy is to create a business where one did not, possibly could not exist before. Therefore the tax revenue coming from companies created by subsidies is in addition to other businesses tax revenue, not replacing it.
Tax expenditure in the ideal setting would be spent on clean water, education, etc. things that increase your welfare. And successful companies paying lots of taxes hopefully increase the welfare of a country.
So it is kind of like taxes emulate welfare increase...is the way I see it.