2. Heterozygosity, residual heterozygosity and expected versus observed heterogeneity (heterozygosity + residual heterozygosity) among individuals of the largest bulk sample size observed in the experiment for each variety and replicate. # SNPs % SNPs Fidelity = % scored with > scored with > # SNPs % SNPs % SNPs SNPs 50% 50% Scored Scored # SNPs not not scored Heterozygotes individuals individuals with with scored as as + Ideotypes Heterozygous Heterozygous ideotypes ideotypes ideotypes Variety & Bulk Total ideotypes observed in (All (All in both in both in bulk, but Rep Size SNPs in bulk, but / % SNPs Heterozygous Heterozygous single single ideotypes ideotypes Heterozygotes loci loci seed and seed and present in present in + Ideotypes comprised > comprised > bulk bulk individuals individuals Expected in 50% of all 50% of all samples samples Individuals individuals) individuals) 9171 Rep 19 5902 1 0.02% 66 1.12% 4 0.07% 94.37% 1 9171 Rep 19 5902 1 0.02% 66 1.12% 2 0.03% 97.10% 2 9551 Rep 19 5902 3 0.05% 8 0.14% 1 0.02% 91.67% 1 9551 Rep 19 5902 3 0.05% 8 0.14% 1 0.02% 91.67% 2 9221 Rep 19 5896 1 0.02% 118 2.00% 5 0.08% 95.97% 1 9221 Rep 18 5896 1 0.02% 115 1.95% 8 0.14% 93.55% 2 17 4541 7 0.15% 178 3.92% 16 0.35% 92.04% A2396 17 4541 5 0.11% 158 3.48% 11 0.24% 93.68%
2. Heterozygosity, residual heterozygosity and expected versus observed heterogeneity (heterozygosity + residual heterozygosity) among individuals of the largest bulk sample size observed in the experiment for each variety and replicate. Variety & Rep Bulk Size Total SNPs # SNPs scored with > 50% individuals Heterozygous (All Heterozygous loci comprised > 50% of all individuals) % SNPs scored with > 50% individuals Heterozygous (All Heterozygous loci comprised > 50% of all individuals) # SNPs Scored with ideotypes in both single seed and bulk samples % SNPs Scored with ideotypes in both single seed and bulk samples # SNPs not scored as ideotypes in bulk, but ideotypes present in individuals % SNPs not scored as ideotypes in bulk, but ideotypes present in individuals Fidelity = % SNPs Heterozygotes + Ideotypes observed in / % SNPs Heterozygotes + Ideotypes Expected in Individuals 9171 Rep 1 19 5902 1 0.02% 66 1.12% 4 0.07% 94.37% 9171 Rep 2 19 5902 1 0.02% 66 1.12% 2 0.03% 97.10% 9551 Rep 1 19 5902 3 0.05% 8 0.14% 1 0.02% 91.67% 9551 Rep 2 19 5902 3 0.05% 8 0.14% 1 0.02% 91.67% 9221 Rep 1 19 5896 1 0.02% 118 2.00% 5 0.08% 95.97% 9221 Rep 2 18 5896 1 0.02% 115 1.95% 8 0.14% 93.55% 17 4541 7 0.15% 178 3.92% 16 0.35% 92.04% A2396 17 4541 5 0.11% 158 3.48% 11 0.24% 93.68%
bmt_16_26.docx