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Table 3 Standard genetic measures for Datasets 7–9

From: MARS: improving multiple circular sequence alignment using refined sequences

Program

Clustal Ω

MARS+ Clustal Ω

MUSCLE

MARS+ MUSCLE

Dataset 7

50.2500.5

50.2500.5.rot

50.2500.5

50.2500.5.rot

Length

2,524

2,524

2,524

2,524

PM Sites

1,875

1,882

1,861

1,861

Transitions

86,781

87,190

86,628

86,628

Transversions

91,334

91,584

91,040

91,040

Substitutions

262,804

263,687

261,248

261,248

Indels

11,531

10,771

8,231

8,231

AVPD

223

224

219

219

Dataset 8

50.2500.20

50.2500.20.rot

50.2500.20

50.2500.20.rot

Length

2,576

2,580

2,582

2,582

PM Sites

2,568

2,573

2,575

2,575

Transitions

284,302

284,667

282,638

282,670

Transversions

283,651

284,673

279,451

279,462

Substitutions

852,738

855,055

842,564

842,672

Indels

39,273

45,769

33,371

33,369

AVPD

728

735

715

715

Dataset 9

50.2500.35

50.2500.35.rot

50.2500.35

50.2500.35.rot

Length

2,675

2,697

2,679

2,667

PM Sites

2,675

2,696

2,678

2,666

Transitions

424,910

423,592

426,230

426,063

Transversions

431,453

428,874

423,113

422,916

Substitutions

1,282,515

1,278,286

1,267,683

1,267,699

Indels

92,060

97,398

73,890

72,718

AVPD

1,122

1,123

1,095

1,094