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Old 05-05-2017, 12:14 AM   #3
WhatsOEver
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Location: Germany

Join Date: Apr 2012
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Why do you expect the genomes to have the exact same sizes? "Closest" sequenced homolog can still be far far away. I would say you go for more meaningful assembly quality assessment criteria.
Alternatively, you could just randomly try assemblers until you find one that gives you ~20MB
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