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 #writing the results into an output HTML file.

$outputfile = 'html_assignment.html';
...

$usrinput = <STDIN>;
chomp $usrinput;

#start the string from position 0
$revprotein3 = substr($dna,3);
...
<tr><td> Peptide reverse compliment sequence Frame 2 </tr></td>
<tr></tr>
<tr><td> $revprotein3 </td></tr>";