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Chunk #3 — Results — Mapping statistics

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A comparison of BeadChip and WGS genotyping outputs using partial validation by sanger sequencing.
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All the data produced by WGS were analyzed for their depth (DOC) and breadth (BOC) of coverage using GATK 3.8 DepthOfCoverage tool [5]. The mean filtered coverage for all three samples exceeded 27x (Fig. 1a–c, Table 2), which complied with recommendations [6]. Repeatability in BOC values for each base quality interval (Fig. 1b, Table 2) and other sequencing metrics (Table 1) proved the quality of the sequencing. Table 2WGS coverage statistics for the filtered mapped dataSampleTotal filtered basesMean DOC% bases above 10% bases above 20% bases above 300018734711677728.7091.684.854.10028639950319528.3991.387.651.30038467894042427.8291.583.849.1