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Table 1 Sequence production and filtering for the three strategies used to identify SNPs.

From: Application of massive parallel sequencing to whole genome SNP discovery in the porcine genome

 

Data 12

Data 15

Data 20

Total sequences after filtering

45,498,558

41,610,684

34,061,918

Total number of SNPs

16,768

17,047

17,489

Mapping qualitya

61.76 (0.027)

61.78 (0.027)

62.02 (0.0237)

Consensus qualitya

59.04 (0.257)

60.23 (0.259)

63.30 (0.263)

Target coveragea

29.37 (0.164)

29.19 (0.163)

28.60 (0.155)

MAFa, b

0.36 (0.0007)

0.36 (0.0007)

0.36 (0.0007)

  1. a Mean (s.e.)
  2. b MAF, minor allele frequency.