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Table 4 Accuracy of imputation and percentages of correctly imputed genotypes for 250 animals with genotypes from a simulated 600 K array

From: Fast imputation using medium or low-coverage sequence data

Reference population size Sequence read depth Error rate (%)
0 1 4 16
Percentage correct Correlation Percentage correct Correlation Percentage correct Correlation Percentage correct Correlation
500 16× 98.4 0.978 98.4 0.977 98.3 0.976 97.8 0.969
98.2 0.975 98.1 0.974 98.0 0.972 96.9 0.956
96.8 0.956 96.7 0.954 96.8 0.955 95.4 0.934
94.7 0.925 94.1 0.917 94.2 0.917 93.6 0.909
90.9 0.869 89.8 0.853 90.0 0.855 90.0 0.855
1000 16× 99.3 0.990 99.2 0.989 99.2 0.989 98.9 0.984
99.2 0.988 99.1 0.987 99.0 0.986 98.0 0.972
98.4 0.978 98.2 0.975 98.1 0.973 96.9 0.956
97.0 0.958 96.5 0.951 96.7 0.953 95.8 0.939
94.8 0.925 93.8 0.911 93.9 0.912 93.4 0.903
10,000    97.5 0.964     
   95.8 0.939