Since I can not easily reproduce your problem, my best guess is that you either have an off-by-one error in your nested foreach loops or your arrays don't have as many elements as you think they do.

Before your foreach loops, you can check the number of elements in the arrays: 

print scalar(@arrayx), "\n";
print scalar(@arrayy), "\n";
print scalar(@arrayz), "\n";

[download]

If that doesn't solve it, add print statements inside your foreach loops.

Another good practice is to check if your regex matches: 

if (@line = $_ =~ m/^(.....).(.....).(....).(...)..(....)....(........
+)(........)(........)/) {
        
        $x = $line[5];
        $arrayx[$num] = $x;

        # more code

}

[download]

See also:

In reply to Re: Calc distance between atoms in pdb file by toolic
in thread Calc distance between atoms in pdb file by stellaparallax

Title:
Use:  <p> text here (a paragraph) </p>
and:  <code> code here </code>
to format your post, it's "PerlMonks-approved HTML":


  • Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
  • Titles consisting of a single word are discouraged, and in most cases are disallowed outright.
  • Read Where should I post X? if you're not absolutely sure you're posting in the right place.
  • Please read these before you post! —
  • Posts may use any of the Perl Monks Approved HTML tags:
    a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
  • You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
            For:     Use:
    & &amp;
    < &lt;
    > &gt;
    [ &#91;
    ] &#93;
  • Link using PerlMonks shortcuts! What shortcuts can I use for linking?
  • See Writeup Formatting Tips and other pages linked from there for more info.