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Table 1 Number and percentage of SNPs excluded in quality control

From: Genome-wide association analysis of feed intake and residual feed intake in Nellore cattle

Criterion HD (SNPs) HD (%) 50 k (SNPs) 50 k (%)
Location* 42,669 5.5 1,723 3.2
Call rate 104,602 13.4 9,253 16.9
MAF 173,564 22.3 13,728 25.1
HWE 20,529 2.6 16,740 3.1
Total 341,374 43.9 26,378 48.3
  1. *The criterion location excluded SNPs without coordinated genomic known and not located in autosomal chromosomes.