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Table 1 Number of variants called by 1000 genome project using hg19 as reference

From: hg19KIndel: ethnicity normalized human reference genome

Class

Total number of variants in 1000 genome phase-3 dataset w.r.t hg19

Filtered and replaced in hg19 (Alternate AF > 0.5in phase-31,000 genome dataset)

Total

Multi-allelic

Total

Multi-allelic

SNP

81,377,202

274,425

1,888,578

16,487

INDEL

3,299,133

103,598

305,634

14,732

SNP, INDEL

65,871

65,871

3401

3401

MNP

123

0

2

0

SV

59,551

0

535

0