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Table 2 Application of sliding window and spline methods to empirical data

From: Defining window-boundaries for genomic analyses using smoothing spline techniques

 

25-SNP sliding window outlier regions

Spline-window outlier regions

Chromosome

Start position

End position

Start position

End position

1

11 588 371

11 892 655

11686850

11872650

1

-

-

54485850

54564950

1

122 802 601

122 831 005

122 790 650

124 093 750

1

164 947 151

165 229 053

-

-

2

35 519 192

35 682 346

35 520 750

35 648 950

2

41 731 365

41 755 299

41 728 850

41 770 550

2

71 306 928

71 378 431

71 314 050

71 377 150

2

101 062 088

101 069 759

101 037 150

102 026 750

2

160 786 800

160 802 631

-

-

3

177 548 249

177 681 538

177 671 050

177 749 050

3

-

-

207 464 650

211 847 850

3

215 594 013

215 778 968

-

-

4

66 924 240

66 935 990

-

-

4

82 825 221

82 858 997

82 818 050

82 860 750

4

113 455 144

122 680 452

113 401 750

114 347 650

120 298 350

122 682 750

4

-

-

140 791 850

140 834 650

4

191 396 139

191 400 390

-

-

5

-

-

24 460 850

24 539 450

5

30 083 952

30 139 317

30 034 650

30 120 950

6

41 490 195

45 914 266

41 517 550

45 921 450

6

75 749 792

76 382 768

76 072 450

76 176 350

6

-

-

86 671 650

86 727 750

6

119 682 711

119 692 810

119 683 750

119 707 650

7

146 671 419

146 771 150

-

-

7

167 742 364

167 809 449

-

-

8

92 876 772

94 647 137

94 633 950

94 680 950

8

118 681 864

118 767 444

-

-

9

26 149 935

26 181 104

25 947 850

26 183 950

9

101 071 793

101 097 690

-

-

10

7 635 223

8 719 903

8 703 450

8 718 950

10

18 846 988

19 024 881

-

-

10

25 251 913

25 264 660

-

-

10

97 503 134

97 542 318

-

-

10

-

-

136 171 150

136 259 150

  1. A comparison of regions exceeding a 99.9% threshold using 25-SNP sliding windows and spline windows, based on empirical data. The data analyzed are from [5], a study on a 30-generation artificial selection experiment for maize ear number. Previously published outlying regions identified as putatively controlling number of ears by plant based on 25-SNP sliding windows are compared with those identified applying the spline-window method to the same dataset.