Why is the amount deposited in my account less than what I charged my customer? Tyler Stout November 18, 2016 01:35 Follow WePay charges a fee of 2.75% + 30¢ per transaction and Square charges 2.75% per transaction. This is automatically deducted from your customer’s payment before funds are deposited into your account. Have more questions? Submit a request 0 Comments Article is closed for comments.