Table 1 A summary comparison of independent allele catalog tools developed for soybean, maize, and Arabidopsis thaliana provides details relevant to the underlying data for each tool

Name

Soy1066

MaizePanzeaAGPv3

Arabidopsis1135

Reference Genome

Wm82.a2.v1

AGPv3

TAIR10

Number of Accessions

1,066

1,208

1,135

Genome Size

978,495,272

2,067,864,162

119,667,750

Total Variant Positions

38,302,167

79,430,168

11,501,945

Total SNP Positions

32,524,427

74,306,694

11,462,068

Total Indel Positions

5,777,740

N/A

39,877

Mean of Missing Data Per Accession

3,412,030

40,704,160

1,987,800

Number of Genes

54,012

58,946

26,923

Number of Genes with Only Reference Allele

1,577

4,534

493

Number of Genes with Null Alleles

35,457

22,585

15,889

Number of Modifying Variants (SNPs and Indels)

618,501

1,093,495

1,129,470

Number of Null Variants (SNPs and Indels)

141,167

84,840

61,974

Mean of Number of Allele Positions Per Gene

40

62

129

Median of Number of Allele Positions Per Gene

22

43

91

Mean of Number of Alleles Per Gene

17

47

45

Median of Number of Alleles Per Gene

9

24

32