Table 2 Standard genetic measures for Datasets 4–6
From: MARS: improving multiple circular sequence alignment using refined sequences
Program | Clustal Ω | MARS+ Clustal Ω | MUSCLE | MARS+ MUSCLE |
|---|---|---|---|---|
Dataset 4 | 25.2500.5 | 25.2500.5.rot | 25.2500.5 | 25.2500.5.rot |
Length | 2,515 | 2,515 | 2,515 | 2,515 |
PM Sites | 1,243 | 1,238 | 1,230 | 1,230 |
Transitions | 20,438 | 20,422 | 20,353 | 20,353 |
Transversions | 20,672 | 20,587 | 20,498 | 20,498 |
Substitutions | 61,780 | 61,523 | 61,289 | 61,289 |
Indels | 2,582 | 1,932 | 1,842 | 1,842 |
AVPD | 214 | 211 | 210 | 210 |
Dataset 5 | 25.2500.20 | 25.2500.20.rot | 25.2500.20 | 25.2500.20.rot |
Length | 2,600 | 2,595 | 2,590 | 2,591 |
PM Sites | 2,585 | 2,577 | 2,572 | 2,572 |
Transitions | 105,738 | 105,596 | 106,070 | 106,256 |
Transversions | 104,778 | 104,451 | 103,335 | 103,238 |
Substitutions | 313,329 | 312,311 | 309,953 | 310,056 |
Indels | 20,524 | 20,658 | 13,678 | 13,784 |
AVPD | 1,112 | 1,109 | 1,078 | 1,079 |
Dataset 6 | 25.2500.35 | 25.2500.35.rot | 25.2500.35 | 25.2500.35.rot |
Length | 2,726 | 2,751 | 2,722 | 2,716 |
PM Sites | 2,700 | 2,727 | 2,684 | 2,679 |
Transitions | 101,801 | 102,471 | 104,001 | 103,796 |
Transversions | 104,993 | 104,632 | 100,595 | 101,078 |
Substitutions | 310,597 | 311,468 | 304,100 | 304,481 |
Indels | 47,080 | 58,288 | 35,956 | 35,110 |
AVPD | 1,192 | 1,232 | 1,133 | 1,131 |