Table 2. Genome-wide SNPs selected from A and B subgenomes for development of Axiom_Arachis SNP array and polymorphic SNPs identified in ‘Reference Set’.
Pseudomolecules of A and B subgenome | Total SNPs on the array | Average SNPs/1 Mb region | Polymorphic SNPs in tetraploid accessions of the ‘Reference Set’ | Polymorphic SNPs in diploid accessions of the ‘Reference Set’ | Common polymorphic SNPs between tetraploid and diploid accessions of the ‘Reference Set’ | Total polymorphic SNPs in the ‘Reference Set’ | Average SNPs/1 Mb region |
---|---|---|---|---|---|---|---|
A01 | 4,714 | 41.49 | 379 | 3,549 | 297 | 3,631 | 33.62 |
A02 | 3,167 | 33.34 | 736 | 2,202 | 499 | 2,442 | 25.71 |
A03 | 3,478 | 25.57 | 558 | 2,554 | 333 | 2,779 | 20.43 |
A04 | 2,693 | 21.54 | 617 | 1,962 | 435 | 2,144 | 17.15 |
A05 | 2,624 | 23.64 | 475 | 1,895 | 303 | 2,068 | 18.63 |
A06 | 2,764 | 24.25 | 487 | 1,975 | 308 | 2,156 | 18.91 |
A07 | 2,303 | 28.78 | 406 | 1,659 | 243 | 1,822 | 22.77 |
A08 | 2,921 | 57.27 | 401 | 2,156 | 244 | 2,315 | 45.39 |
A09 | 2,790 | 22.87 | 483 | 2,018 | 298 | 2,203 | 18.06 |
A10 | 2,529 | 22.78 | 346 | 1,854 | 204 | 1,999 | 18.00 |
Total A subgenome | 29,983 | 30.15 | 4,888 | 21,824 | 3,164 | 23,559 | 23.87 |
B01 | 2,405 | 17.30 | 361 | 1,569 | 181 | 1,750 | 12.59 |
B02 | 3,112 | 28.29 | 617 | 2,076 | 400 | 2,293 | 20.85 |
B03 | 3,443 | 24.95 | 523 | 2,362 | 287 | 2,598 | 18.96 |
B04 | 2,588 | 19.17 | 516 | 1,763 | 311 | 1,971 | 14.60 |
B05 | 2,576 | 17.06 | 395 | 1,682 | 204 | 1,876 | 12.43 |
B06 | 2,793 | 20.24 | 433 | 1,903 | 236 | 2,101 | 15.22 |
B07 | 2,638 | 20.61 | 384 | 1,742 | 193 | 1,933 | 15.10 |
B08 | 2,671 | 20.39 | 323 | 1,836 | 180 | 1,980 | 15.11 |
B09 | 3,152 | 21.15 | 479 | 2,076 | 270 | 2,286 | 15.34 |
B10 | 2,872 | 20.81 | 393 | 1,881 | 199 | 2,077 | 15.05 |
Total B subgenome | 28,250 | 21.00 | 4,424 | 18,890 | 2,461 | 20,865 | 15.53 |
Total | 58,233 | 25.58 | 9,312 | 40,714 | 5,625 | 44,424 | 19.50 |