use strict;
my $str = 'Stuff I dont need before
<div id="start">
blablabla11
blablabla12
<div id="end">
Stuff I dont need in the middle
<div id="start">
blablabla21
blablabla22
<div id="end">
Stuff I dont need in the middle2
<div id="start">
blablabla31
blablabla32
<div id="end">
Stuff I dont need in the end';
my $regex = qr/(?s).*?(<div id="start">.*?<div id="end">)(?:(?:(?!<div id="start">).)*$)?/mp;
my $subst = '$1\\n\\n';
my $result = $str =~ s/$regex/$subst/rg;
print "The result of the substitution is' $result\n";
Please keep in mind that these code samples are automatically generated and are not guaranteed to work. If you find any syntax errors, feel free to submit a bug report. For a full regex reference for Perl, please visit: http://perldoc.perl.org/perlre.html