can home office ask details of transactions from the bank

Can home office ask from the bank about any transactions say for example whom the cheque was paid to from the business account when we will submit business account statements for extension.

Yes

I have transferred one of my employee salary into my own account .what can i do to avoid any issues?
Can they pick up any transaction to ask bank?

Do you mean you've paid one of your employee's salary into your own bank account in error? Or do you mean you are the employee and have paid your salary into the wrong account?

of employee into my account .
on company bank statement it only gives cheque no.

I'm not sure that you've understood me...or I'm misunderstanding you. How could you have paid an employee's cheque (with a different name) into your account?

You can be an employee of the business, too.