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Old 06-10-2017, 10:04 PM   #1
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Location: Melbourne, Australia

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Question Finding two strains of a genome having SNPs/SNVs in their repeat regions

How can I find two strains of a haploid or diploid genome that the differences between the two strains includes some SNPs / SNVs in their repetitive regions?

I'm going to use one strain as target genome and download DNA sequencing reads for that strain, and map it to the other strain as the reference genome.
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read mapping, reference genome repeats, repeat region, sequencing data, snp data

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