Table 4 Number of SNPs identified between Chiifu and three lines of B. rapa using Maq and MUMmer tools
| Â | Total SNPs (filtered) | Single-copy genes | Two copy genes | Three copy genes |
|---|---|---|---|---|
(a) Maq software output | ||||
Chiifu vs. Tetra | 240,424 | 99,845 | 98,740 | 41,839 |
Chiifu vs. YSPB-24 | 277,237 | 109,985 | 108,679 | 46,276 |
Chiifu vs. Candle | 346,189 | 137,934 | 136,632 | 56,873 |
Tetra vs. YSPB-24 | 28,768 | 10,765 | 11,823 | 6,180 |
Tetra vs. Candle | 201,827 | 88,426 | 81,127 | 32,274 |
YSPB-24 vs. candle | 258,201 | 104,678 | 107,860 | 45,663 |
(b) MuMmer tool output | ||||
Chiifu vs. Tetra | 249,671 | 120,504 | 90,431 | 31,840 |
Chiifu vs. YSPB-24 | 231,259 | 113,408 | 82,699 | 29,376 |
Chiifu vs. Candle | 266,349 | 105,498 | 83,983 | 30,485 |
Tetra vs. YSPB-24 | 20,310 | 10,569 | 7,457 | 2,284 |
Tetra vs. Candle | 182,952 | 106,078 | 59,974 | 16,900 |
YSPB-24 vs. candle | 176,149 | 102,255 | 58,096 | 15,798 |