If you got a Stripe deposit in your checking account that should match to two or more invoices, it can be hard to know which of your invoices belong to that deposit.
Fortunately, Stripe has a way to research this.
In order to see your payouts, you would log into your Stripe account, and click balance on the lefthand side. From there, you would click payouts.
Find the payout that matches the deposit in your checking account in Billy and click on it to see which payments are associated with that payment.