You are not maintaining your account so you should shown your business income under the presumptive Basis but you file ITR 3 as a normal business income as well you fill balance sheet also in improper manner.
As per my knowledge scrutiny notice generally come when departments software finds any suspicious BALANCE SHEET & P/L details.
Now either you revise your Filed ROI or wait for email and will do make new ROI under notice 143(3) and make clarifications to AO.