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Table 1 Breakpoint analysis of tomato-infecting begomoviruses and their putative parental sequences.

From: Detection and frequency of recombination in tomato-infecting begomoviruses of South and Southeast Asia

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
  1. *The method in upper case is for the method identifying putative parent