Since issue6013 (which landed on 4.8) there is a lines field on the tax code which is used to define which taxes are included on it. If you have custom taxes you have to create this configuration to include the sum.
All oficial chart of accounts have been updated to follow this new configuration model so they can be used as reference if required.
P.S: May I ask you on which country are you working and why not using a chart of accounts module?
I think that simply the chart of account has not been updated from the templates. You can do it from “Financial>Configuration>Templates>Update Chart of Accounts from Template”