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Table 6 Genotype accuracy

From: Tangram: a comprehensive toolbox for mobile element insertion detection

    Tangram RetroSeq
   Genotype from validation Genotype call Genotype call
   Het Homo Het Homo
Alu NA12878 Het 120 8 119 0
Homo 1 26 37 1
NA12891 Het 95 13 93 0
Homo 0 40 44 0
NA12892 Het 106 11 104 0
Homo 0 32 42 0
L1 NA12878 Het 5 1 4 0
Homo 0 2 1 1
NA12891 Het 4 0 2 0
Homo 0 2 1 0
NA12892 Het 3 1 3 0
Homo 0 3 3 0
  1. A contingency table is shown for MEI genotypes reported by Tangram and RetroSeq on deep coverage sequencing data from a CEU trio (NA12878, NA12891 and NA12892). The “Genotype from validation” column shows the genotype that was validated in Stewart et al. 2011. The “Genotype call” column shows the genotype predicted by Tangram and RetroSeq at the same loci. The “Genotype” column in Table 5 was calculated based on the results in this table.