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  1. or download this
    if ($windowSeq =~ /GG$/)
{
  $sequences{$windowSeq}{Count}++; 
  $sequences{$windowSeq}{Position} = $windowStart; 
}
  2. or download this
    if ($windowSeq =~ /GG$/)
{
  $windowStart += $windowSize;
...
{
  $windowStart += $stepSize;
}