Table 2 Summary of results from sequencing data for each of the four genotypes (before and after the clean-up phase). The number of mapped and unmapped reads and the genome coverage results are also reported

Number of cleaned reads

598,061,879

596,960,957

647,391,314

768,323,476

Mapped reads

593,360,465 (99.21%)

591,262,579 (99.05%)

642,828,463 (99.30%)

762,128,875 (99.19%)

Unmapped reads

4701 (0.79%)

5698 (0.95%)

4563 (0.70%)

6195 (0.81%)

Genome coverage

21×

19×

22×

26×

Mean Mapping Quality (Phred)

23.73

23.59

24.38

23.27

General error rate

0.76%

0.81%

0.68%

0.77%