Skip to main content

Table 2 Summary statistics of filtering and clustering GBS data from D. dumetorum

From: Genetic diversity and population structure of trifoliate yam (Dioscorea dumetorum Kunth) in Cameroon revealed by genotyping-by-sequencing (GBS)

Accessions code Raw reads clusters total at 85% Heterozygosity (ɛ) Sequence error rate (Π) Consensus reads Loci with 75% of samples Mean depth
A07W 97,6092 85,513 0.01 0.006 23,641 6411 22.03
A08W 4,208,284 188,712 0.013 0.006 44,753 6926 93.15
A09I 6,850,560 230,744 0.016 0.006 50,290 6710 153.87
A10W 1,403,568 105,485 0.01 0.006 29,316 6806 32.24
A11S 2,355,324 153,699 0.012 0.007 36,254 6797 50.5
A12S 2,224,370 194,901 0.012 0.007 39,005 6599 38.43
B07N 6,315,512 270,497 0.015 0.006 50,836 6776 132.11
B08W 3,224,481 152,315 0.011 0.006 38,488 6938 75.73
B09W 4,821,443 227,297 0.013 0.006 49,469 6873 107.54
B10W 2,246,679 123,018 0.011 0.006 32,260 6978 54.09
B11S 1,675,059 114,487 0.011 0.007 31,882 6589 35.9
B12S 2,823,683 140,521 0.012 0.006 37,261 6843 64.72
C07S 10,482,599 328,036 0.016 0.006 65,451 6621 219.94
C08I 1,051,320 100,553 0.01 0.007 25,978 6340 23.27
C09W 3,945,117 180,341 0.013 0.006 42,150 6935 91.99
C10N 1,060,648 94,092 0.01 0.007 25,254 6592 24.77
C11S 1,937,689 125,788 0.012 0.006 31,880 6815 43.75
C12S 479,412 60,756 0.009 0.007 16,586 4535 10.32
D07S 3,137,681 162,346 0.012 0.006 38,116 6809 72.13
D08W 1,127,041 85,710 0.01 0.006 25,476 6491 26.71
D09S 24,555 8580 0.012 0.006 883 208 0.2
D10N 814,774 77,508 0.01 0.006 22,223 6298 19.69
D11S 2,860,962 166,597 0.012 0.006 41,004 6818 60.81
D12S 476,212 58,172 0.011 0.007 16,603 4777 11.11
E07S 310,575 49,544 0.01 0.007 11,810 3427 5.73
E08I 2,329,405 156,765 0.011 0.006 36,697 6783 52.83
E09W 1,182,619 119,258 0.01 0.006 27,799 6354 23.22
E10S 1361,644 110,821 0.012 0.007 28,732 6665 28.6
E12W 701,654 79,193 0.01 0.006 21,530 5765 15.23
F07 N 2,413,712 138,285 0.011 0.006 33,944 6969 56.7
F08 W 1,735,184 114,265 0.011 0.006 30,603 6665 40.36
F09S 1,643,257 110,155 0.011 0.007 30,166 6733 37.7
F10 N 739,588 68,577 0.01 0.006 20,579 5869 16.84
F11S 1,542,460 98,117 0.01 0.006 28,884 6651 36.72
G07 N 3,845,340 171,087 0.013 0.006 40,668 6924 88.43
G08 W 1,637,683 115,971 0.011 0.006 31,144 6917 38.44
G09 W 675,273 68,986 0.01 0.006 20,229 5793 15.56
G10 N 2,277,786 128,426 0.011 0.006 32,260 6955 54.21
H06N 4,854,717 207,191 0.014 0.006 49,949 6919 107.4
H07S 3,731,409 192,342 0.012 0.006 46,340 6790 76.41
H08W 3,057,515 146,899 0.012 0.006 35,916 6936 71.65
H09W 1,579,956 107,146 0.01 0.006 28,594 6951 39.04
H10N 1,920,829 109,146 0.011 0.006 31,018 6942 46.4
H11S 1,530,490 103,703 0.01 0.006 29,508 6831 34.52
Mean 2,399,867 132,535 0.011 0.006 32,532 6371 53.43