Table 1.
Summary of TGTT and AACA elements in four Rosaceae genomes
| Family | Superfamily | No. of intact element | Length of LTR (bp) | Length of intact element (bp) | Start and end of LTR (Plus) | Length of TSDs | Ave. age |
|---|---|---|---|---|---|---|---|
| Lineage | (mys) | ||||||
| PbrTGTT1 | Copia/Ale | 8 | 184 | 5049 | TG..TT | 5 | 2.32 |
| MdTGTT1 | Copia/Ale | 6 | 179 | 5113 | TG..TT | 5 | 0.91 |
| PpTGTT1 | Copia/Ale | 4 | 179 | 5009 | TG..TT | 5 | 0.16 |
| PmTGTT1 | Copia/ Ale | 2 | 180 | 5055 | TG..TT | 5 | 0.65 |
| PbrTGTT2 | Copia/ Ale | 22 | 180 | 5039 | TG..TT | 5 | 0.3 |
| MdTGTT2 | Copia/ Ale | 3 | 169 | 5046 | TG..TT | 5 | 0.92 |
| PbrTGTT3 | Copia/ Ale | 2 | 152 | 5114 | TG..TT | 4 | 0.38 |
| PbrTGTT4 | Copia/ Ale | 3 | 229 | 4999 | TG..TT | 6 | 0.28 |
| Subtotal/average | 50 | 180 | 5053 | TG..TT | 5 | 0.74 | |
| PbrAACA1 | Copia/ Ale | 7 | 266 | 4924 | AA..CA | 6 | 0.94 |
| PmAACA1 | Copia/ Ale | 2 | 251 | 4883 | AA..CA | 6 | 0.15 |
| PbrAACA2 | Copia/ Ale | 4 | 201 | 4857 | AA..CA | 6 | 0.05 |
| PbrAACA3 | TRIM | 4 | 244 | 2129 | AA..CA | 6 | 1.85 |
| PbrAACA4 | TRIM | 16 | 203/242 | 2364/2522 | AA..CA | 6 | 1.84 |
| MdAACA4 | TRIM | 8 | 207/242 | 2606/2735 | AA..CA | 6 | 1.03 |
| Subtotal/average | 41 | 232 | 3378 | AA..CA | 6 | 1.26 |
Note: PbrAACA4 and MdAACA4 elements can be separated into two sub-groups based on their sequence length, since their sequence identity and sequence length are still over 80%, the two sub-groups were still classified into one family