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The GENOME_TERRITORY metric is calculated by CollectWgsMetrics.  I am unaware of an alternative GMS source for the number of non-N bases for each reference sequence.  \r\n\r\nA software result for each RefSeq could be made that runs a tool or grep that counts the number on non-N bases and it could have it's own metric.  This software result would be generated once per RefSeq.  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