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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