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Figure 2 | BMC Genetics

Figure 2

From: Methods for mapping and categorization of DNA sequence reads from allopolyploid organisms

Figure 2

Categorization by each PolyDog step. Reads were first categorized by PolyDog based on unique mapping to one genome or another, then based on MAPQ, alignment length, and number of mismatches. In our tests, GSNAP did not calculate different MAPQ scores for each alignment, so MAPQ was not helpful in categorization. Fractions shown are relative to the total number of mapped reads, and are averaged over 3 allotetraploid datasets.

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