Coverage can be calculated from standard reference sequence from which you have primers designed. 

First,

Do BLAST2 by using your reference sequence as subject and forward primers as query. Note down the results. Then do BLAST2 for reverse primers also.

You will find

Fwd primer

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                                                                                                    ===== 

                                                                                            Rev primer

Region between forward and reverse primer is your coverage for sequence.

Now, use same steps to locate your generated sequence by using BLAST2 

her, use sequence date in query. For all blast2, use standard reference sequence as subject. 

Hope this will solve your problem.

Hi,

Thank you so much!