Table 1.
Breakpoint analysis of tomato-infecting begomoviruses and their putative parental sequences.
| Species/Strain | ORF | Breakpoint | Possible parent | Method* |
| ToLCNDV-Mld | AC1 | 2119–2211 | Unknown | gc, rdp |
| ToLCNDV-Svr [Jes] | AC1, AC4 | 1953–2507 | ToLCPV-[LB] | RDP, gc |
| ToLCNDV-[Luc] | AC1, AC4 | 1960–2514 | ToLCPV | RDP, gc |
| ToLCBV-[Ban4] | AV1, AV2 | 481–894 | ToLCKV | GC, rdp. mc |
| AC1, AC2, AC3 | 1185–1784 | Unknown | gc | |
| AC1 | 1793–1894 | Unknown | rdp | |
| AC1, AC4 | 2076–2632 | ToLCGV-[Vad] | RDP | |
| ToLCGV-[Var] | GC | |||
| ToLCGV-[Kel] | MC | |||
| ToLCBV-[Ban5] | AV1, AV2 | 481–894 | ToLCKV | GC, rdp |
| AC1, AC2, AC3 | 1185–1784 | Unknown | gc | |
| AC1 | 1793–1894 | Unknown | rdp, mc | |
| 2579–2708 | ToLCBDV | GC, MC, rdp | ||
| AC1, AC4 | 2144–2734 | ToLCTWV | GC | |
| 2183–2376 | ToLCTWV | RDP | ||
| ToLCBV-[Kol] | AV1, AV2 | 481–894 | Unknown | rdp |
| AC1, AC2, AC3 | 1185–1784 | Unknown | gc | |
| AC1 | 1793–1894 | Unknown | rdp | |
| AC1, AC4 | 2144–2727 | ToLCTWV | GC | |
| 2183–2376 | ToLCTWV | RDP | ||
| ToLCBV | AV1, AV2 | 481–894 | ToLCKV | RDP, GC |
| AC1, AC2, AC3 | 1185–1784 | Unknown | gc | |
| AC1 | 1793–1894 | Unknown | rdp | |
| 2585–2623 | ToLCPV-[LB] | RDP | ||
| AC1, AC4 | 2141–2724 | ToLCTWV | RDP | |
| 2180–2374 | ToLCTWV | GC | ||
| ToLCGV-[Kel] | AV1, AV3 | 598–1214 | TYLCTHV-[Y72] | RDP, gc |
| TYLCTHV-[1] | MC | |||
| AC1, AC2, AC3 | 1183–1782 | Unknown | gc | |
| AC1, AC4 | 2160–2514 | ToLCTWV | RDP, GC | |
| ToLCGV-[Var] | AV1, AV3 | 603–1219 | TYLCTHV-[Y72] | RDP, gc |
| TYLCTHV-[1] | MC | |||
| AC1, AC2, AC3 | 1188–1787 | Unknown | gc | |
| AC1, AC4 | 2165–2519 | ToLCTWV | GC | |
| ToLCGV-[Vad] | AV1, AV3 | 598–1214 | TYLCTHV-[1] | RDP, MC, gc |
| AC1, AC2, AC3 | 1183–1782 | Unknown | gc, mc | |
| AC1, AC4 | 2160–2514 | ToLCTWV | RDP, GC | |
| TYLCCNV-Tb [Y36] | AV1, AV2 | 451–924 | ToLCPV-[LB] | RDP, gc |
| AC1, AC4 | 2053–2213 | ToLCTWV | GC | |
| TYLCCNV-Tb [Y38] | AV1, AV2 | 451–924 | ToLCPV-[LB] | RDP, gc |
| TYLCCNV-[Y64] | AV1 | 525–927 | ToLCSLV | RDP, gc |
| 451–924 | Unknown | gc | ||
| AC1, AC4 | 2053–2213 | ToLCTWV | GC, RDP | |
| TYLCCNV-Tb [Y8] | AV1, AV2 | 451–924 | ToLCPV-[LB] | RDP, gc |
| AC1, AC4 | 2051–2210 | ToLCTWV | GC, RDP | |
| TYLCCNV | AV1, AV2 | 455–928 | Unknown | rdp, gc |
| AC1, AC4 | 2057–2217 | ToLCBV-[Kol] | GC, RDP | |
| TYLCCNV-Tb [Y10] | AV1, AV2 | 450–923 | Unknown | gc, rdp |
| AC1, AC4 | 2044–2482 | TYLCTHV-[MM] | RDP, GC | |
| TYLCCNV-Tb [Y11] | AV1, AV2 | 450–923 | Unknown | rdp. gc |
| AC1, AC4 | 2044–2482 | ToLCTWV | RDP | |
| TYLCTHV-[MM] | GC | |||
| TYLCTHV-[2] | AV1, AV2 | 296–1197 | Unknown | rdp, gc |
| AC1, AC4 | 2200–2360 | ToLCBDV | GC | |
| 2390–2630 | ToLCTWV | RDP, GC | ||
| TYLCTHV-[1] | AV1, AV2 | 305–1206 | Unknown | rdp, gc |
| AC1, AC4 | 2203–2363 | ToLCBDV | GC | |
| 2393–2633 | ToLCTWV | RDP, GC | ||
| TYLCTHV-[MM] | AV1, AV2 | 157–1058 | Unknown | rdp, gc |
| 2058–2218 | ToLCBV-[Kol] | GC | ||
| TYLCTHV-[Y72] | AV1, AV2 | 158–1059 | Unknown | rdp, gc |
| AC1 | 2059–2219 | ToLCBV | GC | |
| AC1, AC4 | 2249–2489 | ToLCTWV | RDP | |
| TYLCCNV-Tb [Y10] | GC | |||
| TYLCCNV-Tb [Y5] | AV1 | 451–924 | Unknown | Gc |
| AC1 | 2051–2210 | ToLCBV | GC | |
| TYLCCNV-Tb [Y25] | AC1 | 2054–2214 | ToLCTWV | RDP, GC |
| 2487–2661 | Unknown | Mc | ||
| ToLCKV | AV1 | 708–875 | ToLCBV-[Ban5] | RDP, GC |
| AC1, AC2, AC3 | 1182–1781 | Unknown | gc, mc | |
| AC1, AC4 | 2159–2513 | ToLCTWV | RDP, GC | |
| ToLCJV-Mld | AC1, AC2, AC3 | 1184–1783 | Unknown | gc, mc |
| AC1, AC4 | 2143–2736 | TYLCCNV-Tb [Y5] | RDP | |
| TYLCCNV-Tb [Y25] | GC | |||
| 2058–2321 | ToLCBV-[Kol] | GC | ||
| 2588–2642 | TYLCCNV-Tb [Y5] | GC | ||
| ToLCBDV | AC1, AC2, AC3 | 1184–1783 | Unknown | gc, mc |
| AC1, AC4 | 2058–2321 | ToLCTWV | RDP | |
| ToLCBV-[Kol] | GC | |||
| 2143–2735 | Unknown | rdp, gc | ||
| ToLCSLV | AV1, AV2 | 132–467 | ToLCBV-[Ban4] | GC, MC |
| AC1, AC2, AC3 | 1097–1608 | Unknown | rdp, gc | |
| AC1 | 1789–1890 | Unknown | rdp, mc | |
| AC1, AC4 | 2140–2731 | ToLCTWV | RDP, gc, mc | |
| ToLCMV | IR | 2687–34 | TYLCCNV-Tb [Y25] | RDP |
| 2687–38 | TYLCCNV | RDP | ||
| 2687–61 | Unknown | Mc | ||
| ToLCPV | AC1, IR | 2537–77 | TYLCCNV | RDP |
| AV2, IR | 2727–78 | Unknown | Rdp | |
| IR, AV2 | 39–68 | Unknown | gc, mc | |
| 0–70 | Unknown | Gc | ||
| IR | 2715–43 | ToLCPV-[LB] | MC | |
| AC1, AC4 | 2306–2627 | TYLCCNV-Tb [Y11] | GC, mc | |
| AC1 | 2508–2715 | Unknown | rdp, gc, mc | |
| ToLCPV-[LB] | AC1, AC4 | 2162–2685 | Unknown | rdp, gc |
| ToLCTWV | AC1 | 2494–2671 | Unknown | gc, mc |
*The method in upper case is for the method identifying putative parent