Table 2.
Frequently detected recombination events by RDP in CLCuMuV, CLCuMuA, and CLCuMuB datasets.
| Sequences | Recombination breakpoints | Parental sequences | ||||||
|---|---|---|---|---|---|---|---|---|
| Group | detected with recomb. event | Recombinanta | Begin | End | Major | Minor | Detection Methodsb | P-valuec |
| CLCuMuV-PAK | 18 | FJ218486 PAK | 690 (750) | 2191 (2284) | AJ496461 PAK | EU384573 PAK | RGBMCS3 | 1.645 × 10−24 |
| CLCuMuV-CHN | 1 | AJ002459 CHN | 2190 (2701) | 2278 (2912) | Unknown | NC004607 CHN | RGBMCSP | 1.239 × 10−19 |
| CLCuMuV-IND | 13 | JN678803 IND | 998 (1057) | 1459 (1521) | MN127818 IND | KY561820 IND | RGBM3 | 1.887 × 10−29 |
| CLCuMuA-PAK | 76 | LN874310 PAK | 174 (202) | 420 (994) | Unknown | LN874310 PAK | RGBMCS3 | 1.046 × 10−08 |
| CLCuMuA-IND | 1 | KJ028212 IND | 892 (1055) | 1286 (1807) | MF141735 IND | MF141732 IND | GMS3 | 2.203 × 10−06 |
| CLCuMuB-PAK | 65 | EU384594 PAK | 23 (66) | 953 (1826) | Unknown | LT549464 PAK | RGBMCS3 | 1.367 × 10−37 |
| CLCuMuB-CHN | 1 | JQ716368 CHN | 315 (1144) | 532 (2107) | HQ455359 CHN | Unknown | RGBMCS | 8.623 × 10−14 |
| CLCuMuB-IND | 20 | JF502396 IND | 202 (389) | 866 (1702) | JF502398 IND | JF502390 IND | RGBMCS3 | 2.787 × 10−19 |
| CLCuMuB-PHL | 1 | KF413617 PHL | 239 (464) | 1049 (2041) | KF413619 PHL | KX068710 PHL | RGBM3 | 3.222 × 10−05 |
a
Numbering starts at the first nucleotide after the cleavage site at the origin of replication and increases clockwise.
b
R, RDP; G, GeneConv; B, Bootscan; M, MaxChi; C, CHIMAERA; S, SisScan; 3, 3SEQ.
c
The described P-value corresponds to the program in bold, underlined type, and is the lowest P-value calculated for the event in question.