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Table 1 Mean linkage disequilibrium (LD) given as r 2 and average LD decay distance a in kb per chromosome in 155 lines (all) and in six b subgroups as determined by ADMIXTURE

From: A powerful tool for genome analysis in maize: development and evaluation of the high density 600 k SNP genotyping array

  All Dent – BSSS Dent – Non-BSSS Iodent Non-Northern Flint Northern Flint (Sub) Tropical
(N = 155) (N = 14) (N = 32) (N = 14) (N = 18) (N = 34) (N = 34)
Chr. mean r2 r2decay mean r2 r2decay mean r2 r2decay mean r2 r2decay mean r2 r2decay mean r2 r2decay mean r2 r2decay
1 0.029 119.14 0.202 14,411.28 0.049 156.32 0.212 15,949.23 0.133 4,007.83 0.049 197.98 0.037 43.38
2 0.027 126.13 0.260 30,329.28 0.048 178.63 0.177 9,411.84 0.133 4,211.89 0.059 332.88 0.039 64.29
3 0.034 199.62 0.263 31,772.64 0.057 306.29 0.170 8,340.20 0.199 15,545.48 0.055 352.29 0.044 96.22
4 0.031 192.41 0.207 16,123.82 0.054 319.43 0.310 50,389.31 0.128 3,114.28 0.063 404.96 0.037 83.82
5 0.027 119.91 0.224 18,692.30 0.047 172.69 0.154 5,681.66 0.144 4,626.09 0.056 262.24 0.038 57.22
6 0.025 106.65 0.198 14,001.18 0.049 188.22 0.170 8,886.16 0.099 955.38 0.049 206.58 0.036 40.20
7 0.033 176.04 0.214 16,901.24 0.057 246.89 0.228 18,945.94 0.141 3,737.87 0.060 379.57 0.042 75.11
8 0.033 183.72 0.257 28,937.29 0.053 254.27 0.280 37,984.38 0.120 1,537.13 0.052 322.23 0.039 81.56
9 0.033 167.58 0.309 53,758.98 0.057 263.68 0.263 28,009.93 0.151 5,020.05 0.056 314.73 0.041 61.48
10 0.033 192.64 0.396 136,831.20 0.057 303.38 0.256 11,899.95 0.130 2,916.32 0.054 343.07 0.041 96.65
Mean 0.031 158.38 0.253 36,175.92 0.053 238.98 0.222 19,549.86 0.138 4,567.23 0.055 311.65 0.039 69.99
Median 0.032 171.81 0.241 23,814.80 0.054 250.58 0.220 13,924.59 0.133 3,872.85 0.055 327.55 0.039 69.70
  1. aDistances in kb for r2 = 0.2 calculated per 50 Mb window.
  2. bLD decay distances were not calculated for LSC (N = 9).