Table 2.
Statistical features of recombination events observed in complete DNA-A sequence analyzed in the present study.
| Recombination Event | Probable Breakpoints | Recombinant Sequence(s) | Parental Sequence(s) | P-value calculated by different recombination detection algorithms | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Begin | End | Minor | Major | RDP | GENECONV | Bootscan | Maxchi | Chimaera | SiSscan | 3Seq | ||
| R1 | 47 | 326 | KY120359 KY120360 KY120361 | JF502359 (CLCuMuV-Ra) SriGanganagar, India, 2005 | EU384574 (CLCuMuV-Ra) Multan, Pakistan, 2007 | 8.32E-14 | 9.39E-11 | 1.58E-12 | 1.60E-07 | 5.54E-08 | 1.83E-48 | 1.98E-10 |
| R2 | 328 | 887 | KY120359 KY120360 KY120361 | KX656797 (CLCuMuV) Vehari, Pakistan, 2015 | AJ002448 (CLCuKoV) Faisalabad, Pakistan, 1996 | 9.17E-58 | 5.32E-54 | 3.05E-49 | 1.30E-20 | 1.27E-20 | 2.21E-24 | 9.92E-11 |
| R3 | 1300 | 79 | KY120359 KY120360 KY120361 KY120362 | AJ002452 (CLCuAaV) Alabad, Pakistan, 1996 | HE985227 (CLCuKoV-Bu) Okara, Pakistan, 2012 | 3.45E-39 | 3.64E-45 | 9.30E-41 | 3.84E-30 | 5.81E-23 | 2.32E-46 | 1.68E-27 |
| R4/R6 | 1962/ 2329* | 65/7* | KY120359 KY120360 KY120361 KY120362 | KX656793 (CLCuAlV) Vehari, Pakistan, 2015 | JF510458 (CLCuKoV-Bu) Bathinda, India, 2010 | 1.06E-68 | 7.05E-62 | 9.18E-67 | 1.84E-31 | 1.16E-32 | 3.42E-36 | 8.64E-64 |
| R5 | 443 | 834 | KY120362 | AY765254 (CLCuMuV-Ra) Sirsa, India, 2004 | HE985227 (CLCuKoV) Okara, Pakistan, 2012 | 1.50E-45 | 2.92E-44 | 9.05E-36 | 1.45E-16 | 1.41E-16 | 2.94E-25 | 9.92E-11 |
*For recombination event R6.