$/ and $\ are two different variables. Input ≠ output.

Also, read $/:

Remember: the value of $/ is a string, not a regex. awk has to be better for something. :-)
What might work, though, is 
$/ = "\n>";

[download]

You'll need to remove the rest of the header from the the block, though. 

($q=q:Sq=~/;[c](.)(.)/;chr(-||-|5+lengthSq)`"S|oS2"`map{chr |+ord
}map{substrSq`S_+|`|}3E|-|`7**2-3:)=~y+S|`+$1,++print+eval$q,q,a,

[download]

In reply to Re^5: Regexp matching on a multiline file: dealing with line breaks by choroba
in thread Regexp matching on a multiline file: dealing with line breaks by BlueStarry

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