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Table 1 Taxon and Intra measure, output 1

From: Surprising results on phylogenetic tree building methods based on molecular sequences

Average absolute/relative Taxon/Intra distances per method for non-Metazoa

133525 orthologous groups

     

Method

Taxon RF

Taxon 0-1

Intra

Mafft_InducDist_BioME

1.4254

16.75%

0.4631

1.6124

29.23%

Mafft_InducDist_FastME

1.4258

16.76%

0.4632

1.6137

29.25%

ClustalO_InducDist_BioME

1.4262

16.77%

0.4634

1.6137

29.25%

ClustalO_InducDist_FastME

1.4266

16.77%

0.4634

1.6147

29.26%

ClustalW_InducDist_BioME

1.4277

16.78%

0.4637

1.6147

29.31%

ClustalW_InducDist_FastME

1.4278

16.78%

0.4638

1.6156

29.32%

Probcons_InducDist_BioME

1.4286

16.80%

0.4647

1.6164

29.31%

Probcons_InducDist_FastME

1.4288

16.81%

0.4648

1.6178

29.32%

Poa_InducDist_BioME

1.4298

16.86%

0.4654

1.6166

29.38%

Mafft_InducDist_BioNJ

1.4307

16.74%

0.4630

1.6240

29.37%

Poa_InducDist_FastME

1.4311

16.88%

0.4656

1.6178

29.39%

Prank_InducDist_BioME

1.4314

16.81%

0.4643

1.6173

29.27%

Prank_InducDist_FastME

1.4315

16.82%

0.4644

1.6177

29.28%

ClustalO_InducDist_BioNJ

1.4318

16.76%

0.4632

1.6240

29.36%

Probcons_InducDist_BioNJ

1.4336

16.79%

0.4646

1.6266

29.40%

Prograph1_InducDist_FastME

1.4338

16.90%

0.4659

1.6211

29.40%

Prograph1_InducDist_BioME

1.4340

16.89%

0.4658

1.6206

29.39%

ClustalW_InducDist_BioNJ

1.4342

16.77%

0.4638

1.6245

29.38%

Poa_InducDist_BioNJ

1.4348

16.84%

0.4651

1.6251

29.41%

Prank_InducDist_BioNJ

1.4367

16.80%

0.4641

1.6264

29.35%

Prograph1_InducDist_BioNJ

1.4408

16.89%

0.4659

1.6326

29.54%

Probabilistic_InducDist_BioME

1.4416

16.94%

0.4670

1.6317

29.65%

Probabilistic_InducDist_FastME

1.4420

16.94%

0.4670

1.6325

29.65%

ClustalW_InducDist_LST

1.4430

16.80%

0.4643

1.6317

29.41%

Global_BioME

1.4435

17.01%

0.4682

1.6373

29.82%

GlobalWAG_BioME

1.4435

17.02%

0.4687

1.6372

29.84%

Global_FastME

1.4436

17.01%

0.4682

1.6388

29.83%

GlobalWAG_FastME

1.4439

17.03%

0.4688

1.6388

29.86%

Prank_PrankGuide

1.4444

16.76%

0.4625

1.6272

29.17%

Mafft_InducDist_LST

1.4450

16.78%

0.4635

1.6340

29.39%

ClustalO_InducDist_LST

1.4454

16.79%

0.4635

1.6342

29.40%

Prank_InducDist_LST

1.4459

16.83%

0.4645

1.6337

29.37%

GlobalJTT_BioME

1.4465

17.07%

0.4694

1.6429

29.99%

Probcons_InducDist_LST

1.4468

16.83%

0.4649

1.6361

29.43%

Poa_InducDist_LST

1.4468

16.88%

0.4655

1.6341

29.46%

GlobalJTT_FastME

1.4473

17.07%

0.4693

1.6441

30.01%

Global_BioNJ

1.4474

16.99%

0.4678

1.6454

29.86%

LogDelGlobal_BioME

1.4474

17.13%

0.4708

1.6448

30.17%

GlobalWAG_BioNJ

1.4480

17.00%

0.4683

1.6445

29.86%

ClustalO_CodonDist_BioME

1.4481

16.80%

0.4650

1.6571

30.04%

ClustalW_CodonDist_BioME

1.4481

16.81%

0.4653

1.6584

30.10%

ClustalO_CodonDist_FastME

1.4483

16.81%

0.4653

1.6588

30.06%

LogDelGlobal_FastME

1.4483

17.14%

0.4710

1.6464

30.19%

Mafft_CodonDist_FastME

1.4485

16.80%

0.4649

1.6580

30.04%

PartialOrder_InducDist_FastME

1.4488

17.32%

0.4736

1.6414

30.18%

PartialOrder_InducDist_BioME

1.4489

17.31%

0.4734

1.6408

30.17%

Probabilistic_InducDist_BioNJ

1.4489

16.94%

0.4671

1.6444

29.78%

Mafft_CodonDist_BioME

1.4490

16.80%

0.4649

1.6569

30.03%

GlobalLG_BioME

1.4490

17.10%

0.4700

1.6490

30.13%

Global_NJ

1.4490

17.02%

0.4683

1.6483

29.94%

ClustalW_CodonDist_FastME

1.4492

16.82%

0.4654

1.6602

30.12%

Prograph1_InducDist_LST

1.4503

16.92%

0.4660

1.6397

29.56%

GlobalLG_FastME

1.4504

17.11%

0.4704

1.6505

30.14%

Probcons_CodonDist_BioME

1.4505

16.83%

0.4660

1.6598

30.11%

GlobalJTT_BioNJ

1.4507

17.05%

0.4693

1.6496

29.99%

Probcons_CodonDist_FastME

1.4509

16.83%

0.4659

1.6615

30.13%

Poa_CodonDist_FastME

1.4513

16.89%

0.4669

1.6624

30.18%

Poa_CodonDist_BioME

1.4514

16.89%

0.4671

1.6608

30.16%

LogDelGlobal_BioNJ

1.4518

17.12%

0.4709

1.6525

30.21%

Prank_CodonDist_FastME

1.4534

16.88%

0.4664

1.6605

30.04%

Prank_CodonDist_BioME

1.4538

16.87%

0.4663

1.6592

30.02%

PartialOrder_InducDist_BioNJ

1.4538

17.29%

0.4731

1.6478

30.18%

GlobalLG_BioNJ

1.4543

17.08%

0.4696

1.6571

30.15%

Prograph1_CodonDist_BioME

1.4580

16.94%

0.4678

1.6625

30.11%

Prograph1_CodonDist_FastME

1.4583

16.94%

0.4679

1.6642

30.12%

Probabilistic_InducDist_LST

1.4584

16.96%

0.4672

1.6511

29.77%

GlobalWAG_LST

1.4593

17.02%

0.4685

1.6526

29.86%

Global_LST

1.4595

17.01%

0.4682

1.6532

29.87%

PartialOrder_InducDist_LST

1.4609

17.28%

0.4730

1.6524

30.13%

GlobalJTT_LST

1.4623

17.07%

0.4694

1.6570

29.99%

Mafft_CodonDist_BioNJ

1.4625

16.83%

0.4651

1.6723

30.15%

Probabilistic_CodonDist_FastME

1.4626

16.99%

0.4691

1.6753

30.42%

ClustalO_CodonDist_BioNJ

1.4629

16.84%

0.4653

1.6742

30.20%

Probabilistic_CodonDist_BioME

1.4630

16.98%

0.4690

1.6742

30.40%

LogDelGlobal_LST

1.4632

17.13%

0.4705

1.6594

30.19%

ClustalW_CodonDist_BioNJ

1.4634

16.84%

0.4653

1.6761

30.24%

Probcons_CodonDist_BioNJ

1.4642

16.85%

0.4659

1.6754

30.25%

GlobalLG_LST

1.4647

17.10%

0.4700

1.6630

30.13%

Poa_CodonDist_BioNJ

1.4654

16.93%

0.4673

1.6777

30.30%

ClustalW_CodonDist_LST

1.4671

16.82%

0.4653

1.6623

30.02%

Prank_CodonDist_BioNJ

1.4679

16.89%

0.4668

1.6761

30.18%

Mafft_CodonDist_LST

1.4705

16.82%

0.4649

1.6620

29.96%

ClustalO_CodonDist_LST

1.4705

16.85%

0.4657

1.6631

30.00%

Prograph1_CodonDist_BioNJ

1.4717

16.95%

0.4676

1.6798

30.26%

Probcons_CodonDist_LST

1.4728

16.85%

0.4660

1.6654

30.05%

Poa_CodonDist_LST

1.4730

16.94%

0.4676

1.6656

30.10%

Prank_PhyML

1.4733

17.30%

0.4738

1.7164

31.22%

Local_BioME

1.4738

17.32%

0.4733

1.6832

30.69%

Prank_CodonDist_LST

1.4739

16.88%

0.4663

1.6636

29.96%

LocalWAG_BioME

1.4748

17.35%

0.4739

1.6850

30.74%

Local_FastME

1.4750

17.34%

0.4736

1.6851

30.71%

LocalWAG_FastME

1.4753

17.36%

0.4739

1.6865

30.76%

PartialOrder_CodonDist_BioME

1.4753

17.42%

0.4773

1.6835

30.95%

PartialOrder_CodonDist_FastME

1.4763

17.43%

0.4773

1.6850

30.98%

Prank_RAxMLG

1.4780

17.34%

0.4744

1.7235

31.30%

Probabilistic_CodonDist_BioNJ

1.4781

17.00%

0.4692

1.6935

30.57%

Prograph1_CodonDist_LST

1.4782

16.94%

0.4676

1.6682

30.07%

Local_BioNJ

1.4785

17.31%

0.4733

1.6903

30.74%

LocalWAG_BioNJ

1.4799

17.35%

0.4739

1.6928

30.80%

Mafft_PhyML

1.4804

17.49%

0.4767

1.7262

31.56%

Local_NJ

1.4806

17.33%

0.4735

1.6930

30.78%

ClustalO_PhyML

1.4809

17.49%

0.4778

1.7271

31.62%

GlobalCodonPAM_BioME

1.4815

17.17%

0.4725

1.6941

30.87%

GlobalCodonPAM_FastME

1.4821

17.16%

0.4724

1.6956

30.89%

ClustalW_PhyML

1.4823

17.55%

0.4790

1.7292

31.69%

Prograph1_PhyML

1.4828

17.50%

0.4771

1.7259

31.49%

Poa_PhyML

1.4832

17.54%

0.4783

1.7297

31.63%

Probcons_PhyML

1.4837

17.56%

0.4788

1.7296

31.70%

LogDelLocal_BioME

1.4837

17.55%

0.4774

1.6970

31.16%

Probabilistic_CodonDist_LST

1.4843

17.01%

0.4689

1.6812

30.38%

LogDelLocal_FastME

1.4856

17.55%

0.4775

1.6987

31.18%

LocalLG_BioME

1.4859

17.53%

0.4768

1.7014

31.13%

Mafft_RAxMLG

1.4862

17.53%

0.4773

1.7361

31.67%

LocalLG_FastME

1.4866

17.54%

0.4770

1.7023

31.14%

LocalJTT_BioME

1.4872

17.57%

0.4776

1.6980

31.04%

Local_LST

1.4879

17.31%

0.4731

1.6956

30.70%

Prograph1_RAxMLG

1.4880

17.54%

0.4778

1.7351

31.59%

ClustalO_RAxMLG

1.4882

17.55%

0.4782

1.7371

31.72%

LocalWAG_LST

1.4883

17.34%

0.4733

1.6966

30.74%

Probabilistic_PhyML

1.4885

17.63%

0.4802

1.7342

31.77%

PartialOrder_CodonDist_BioNJ

1.4885

17.44%

0.4770

1.7003

31.06%

LocalJTT_FastME

1.4887

17.58%

0.4776

1.6998

31.06%

Poa_RAxMLG

1.4889

17.58%

0.4789

1.7402

31.74%

ClustalW_RAxMLG

1.4894

17.62%

0.4796

1.7392

31.79%

LogDelLocal_BioNJ

1.4895

17.56%

0.4774

1.7034

31.19%

ClustalO_RAxML

1.4897

17.80%

0.4823

1.7384

31.95%

Probcons_RAxMLG

1.4901

17.60%

0.4791

1.7408

31.82%

ClustalW_RAxML

1.4904

17.83%

0.4832

1.7400

32.00%

LocalLG_BioNJ

1.4917

17.53%

0.4771

1.7085

31.15%

PartialOrder_CodonDist_LST

1.4918

17.41%

0.4765

1.6844

30.78%

LocalJTT_BioNJ

1.4927

17.56%

0.4774

1.7053

31.07%

Probcons_RAxML

1.4929

17.89%

0.4836

1.7420

32.07%

Prank_Parsimony

1.4934

17.36%

0.4730

1.7379

31.34%

Poa_RAxML

1.4939

17.85%

0.4830

1.7441

32.07%

Prograph1_RAxML

1.4942

17.82%

0.4821

1.7412

31.95%

LogDelLocal_LST

1.4944

17.50%

0.4765

1.7047

31.06%

Prograph1_Parsimony

1.4948

17.40%

0.4742

1.7366

31.30%

Probabilistic_RAxMLG

1.4950

17.67%

0.4804

1.7439

31.86%

GlobalCodonPAM_BioNJ

1.4951

17.18%

0.4723

1.7056

30.91%

Prank_RAxML

1.4956

18.17%

0.4878

1.7357

31.96%

LocalLG_LST

1.4973

17.48%

0.4762

1.7086

31.04%

LocalJTT_LST

1.4986

17.52%

0.4765

1.7063

30.96%

Mafft_RAxML

1.5006

18.30%

0.4898

1.7437

32.22%

GlobalCodonPAM_LST

1.5022

17.16%

0.4717

1.6930

30.68%

Probabilistic_RAxML

1.5074

18.40%

0.4921

1.7490

32.32%

ClustalW_Parsimony

1.5105

17.63%

0.4786

1.7603

31.90%

Probabilistic_Parsimony

1.5109

17.56%

0.4770

1.7618

31.88%

PartialOrder_PhyML

1.5153

18.37%

0.4923

1.7581

32.53%

Mafft_Parsimony

1.5220

17.75%

0.4804

1.7713

32.10%

ClustalO_Parsimony

1.5226

17.75%

0.4803

1.7728

32.12%

PartialOrder_RAxMLG

1.5231

18.38%

0.4923

1.7681

32.61%

Poa_Parsimony

1.5257

17.87%

0.4823

1.7779

32.28%

Probcons_Parsimony

1.5301

17.84%

0.4823

1.7823

32.32%

PartialOrder_RAxML

1.5374

19.12%

0.5039

1.7771

33.18%

PartialOrder_Parsimony

1.5543

18.08%

0.4873

1.8205

32.79%

LocalCodonPAM_LST

1.5741

18.29%

0.4886

1.7544

32.02%

LocalCodonPAM_BioME

1.5749

18.54%

0.4916

1.7766

32.63%

LocalCodonPAM_FastME

1.5749

18.54%

0.4917

1.7788

32.66%

LocalCodonPAM_BioNJ

1.5913

18.60%

0.4924

1.7853

32.58%

Prograph1_Gap

1.9433

21.39%

0.5260

2.4423

45.15%

Prank_Gap

1.9785

21.75%

0.5299

2.4897

46.18%

Poa_Gap

2.3287

25.84%

0.5777

2.7803

52.61%

Probabilistic_Gap

2.3428

26.34%

0.5818

2.7972

53.64%

PartialOrder_Gap

2.4197

24.94%

0.5591

2.8379

51.69%

ClustalW_Gap

2.5021

27.89%

0.5982

2.9157

56.10%

Mafft_Gap

2.5251

27.01%

0.5850

2.9296

55.42%

ClustalO_Gap

2.5572

27.63%

0.5921

2.9586

56.38%

Probcons_Gap

2.5816

28.39%

0.6012

2.9752

57.11%

GlobalSynPAM_LST

2.6621

30.23%

0.6191

2.5864

48.01%

LocalSynPAM_LST

2.6831

30.51%

0.6209

2.6048

48.36%

GlobalSynPAM_BioNJ

2.8077

30.97%

0.6218

2.8184

51.99%

LocalSynPAM_BioNJ

2.8226

31.21%

0.6238

2.8305

52.25%

GlobalSynPAM_BioME

2.8493

31.80%

0.6272

2.8923

54.71%

GlobalSynPAM_FastME

2.8601

31.88%

0.6276

2.9101

55.07%

LocalSynPAM_BioME

2.8607

31.97%

0.6285

2.9007

54.80%

LocalSynPAM_FastME

2.8773

32.07%

0.6289

2.9244

55.25%

Method

Taxon RF

Taxon 0-1

Intra

PartialOrder_CodonDist_BioNJ

2.2812

20.25%

0.5524

3.1378

39.11%

PartialOrder_CodonDist_BioME

2.2940

20.43%

0.5551

3.1490

39.43%

Prank_CodonDist_BioNJ

2.2949

20.18%

0.5500

3.1932

39.45%

PartialOrder_CodonDist_FastME

2.3042

20.47%

0.5554

3.1604

39.52%

PartialOrder_CodonDist_LST

2.3069

20.24%

0.5509

3.1061

38.65%

Prank_CodonDist_BioME

2.3103

20.37%

0.5533

3.2056

39.60%

Prank_CodonDist_LST

2.3123

20.15%

0.5492

3.1532

38.89%

GlobalCodonPAM_BioNJ

2.3155

20.47%

0.5545

3.1970

39.76%

Prank_CodonDist_FastME

2.3202

20.40%

0.5532

3.2164

39.67%

GlobalCodonPAM_BioME

2.3320

20.67%

0.5565

3.2058

40.05%

Prograph1_CodonDist_BioNJ

2.3362

20.19%

0.5491

3.2380

39.58%

GlobalCodonPAM_LST

2.3393

20.42%

0.5521

3.1599

39.25%

GlobalCodonPAM_FastME

2.3445

20.73%

0.5566

3.2180

40.16%

Prograph1_CodonDist_BioME

2.3482

20.35%

0.5514

3.2457

39.71%

Prograph1_CodonDist_FastME

2.3570

20.38%

0.5512

3.2527

39.76%

Prograph1_CodonDist_LST

2.3604

20.19%

0.5477

3.2084

39.14%

LocalCodonPAM_BioNJ

2.3634

20.89%

0.5579

3.2110

40.02%

LocalCodonPAM_BioME

2.3766

21.07%

0.5604

3.2148

40.23%

LocalCodonPAM_LST

2.3785

20.78%

0.5559

3.1685

39.43%

Mafft_CodonDist_BioNJ

2.3811

21.00%

0.5577

3.3489

41.02%

Probabilistic_CodonDist_BioNJ

2.3833

20.91%

0.5558

3.3162

40.94%

LocalCodonPAM_FastME

2.3873

21.12%

0.5605

3.2262

40.33%

Mafft_CodonDist_LST

2.3935

20.94%

0.5563

3.3051

40.47%

Mafft_CodonDist_BioME

2.4052

21.21%

0.5600

3.3661

41.25%

Probabilistic_CodonDist_BioME

2.4062

21.12%

0.5582

3.3381

41.24%

Probabilistic_CodonDist_LST

2.4081

20.89%

0.5546

3.2916

40.52%

Probcons_CodonDist_BioNJ

2.4086

21.00%

0.5561

3.3803

41.23%

Mafft_CodonDist_FastME

2.4146

21.24%

0.5598

3.3771

41.33%

Probabilistic_CodonDist_FastME

2.4165

21.16%

0.5583

3.3514

41.34%

Probcons_CodonDist_LST

2.4188

20.93%

0.5549

3.3364

40.70%

ClustalO_CodonDist_BioNJ

2.4205

21.26%

0.5583

3.4025

41.60%

ClustalO_CodonDist_LST

2.4294

21.16%

0.5567

3.3563

41.01%

Probcons_CodonDist_BioME

2.4393

21.24%

0.5593

3.4079

41.57%

ClustalO_CodonDist_BioME

2.4480

21.52%

0.5611

3.4249

41.86%

Probcons_CodonDist_FastME

2.4500

21.26%

0.5591

3.4202

41.65%

ClustalO_CodonDist_FastME

2.4595

21.56%

0.5611

3.4370

41.95%

Poa_CodonDist_BioNJ

2.4992

21.91%

0.5629

3.4742

42.31%

Poa_CodonDist_LST

2.5005

21.85%

0.5617

3.4225

41.76%

Poa_CodonDist_BioME

2.5280

22.17%

0.5653

3.5039

42.68%

Poa_CodonDist_FastME

2.5356

22.20%

0.5651

3.5138

42.76%

Prank_RAxMLG

2.5551

21.40%

0.5417

3.8823

45.94%

Prank_PhyML

2.5564

21.40%

0.5424

3.8813

45.93%

Prank_RAxML

2.5871

22.23%

0.5539

3.9048

46.68%

Mafft_PhyML

2.6215

22.03%

0.5475

3.9799

47.06%

Mafft_RAxMLG

2.6283

22.05%

0.5468

3.9867

47.14%

ClustalW_CodonDist_BioNJ

2.6422

22.47%

0.5631

3.7195

44.12%

Probabilistic_PhyML

2.6445

22.01%

0.5471

3.9893

47.09%

PartialOrder_PhyML

2.6466

22.06%

0.5491

3.9623

47.03%

Mafft_RAxML

2.6470

22.74%

0.5565

3.9980

47.78%

Probabilistic_RAxMLG

2.6494

21.98%

0.5465

3.9974

47.17%

Probcons_PhyML

2.6509

22.16%

0.5482

4.0128

47.39%

ClustalW_CodonDist_LST

2.6516

22.41%

0.5623

3.6854

43.66%

PartialOrder_RAxMLG

2.6543

22.10%

0.5492

3.9743

47.17%

Prograph1_PhyML

2.6589

21.77%

0.5434

4.0053

46.91%

Prograph1_RAxMLG

2.6618

21.76%

0.5435

4.0155

47.02%

Probabilistic_RAxML

2.6641

22.60%

0.5558

4.0059

47.75%

Probcons_RAxMLG

2.6653

22.25%

0.5477

4.0258

47.53%

ClustalO_PhyML

2.6661

22.44%

0.5504

4.0345

47.66%

ClustalW_CodonDist_BioME

2.6729

22.74%

0.5662

3.7448

44.39%

Probcons_RAxML

2.6758

22.82%

0.5563

4.0312

48.04%

PartialOrder_RAxML

2.6764

22.87%

0.5594

3.9887

47.83%

ClustalO_RAxMLG

2.6768

22.45%

0.5497

4.0466

47.81%

ClustalW_CodonDist_FastME

2.6829

22.78%

0.5662

3.7554

44.47%

Prograph1_RAxML

2.6848

22.49%

0.5534

4.0284

47.66%

ClustalO_RAxML

2.6859

22.95%

0.5578

4.0453

48.22%

Poa_PhyML

2.7723

23.26%

0.5574

4.1128

48.54%

Poa_RAxMLG

2.7870

23.33%

0.5573

4.1280

48.70%

Poa_RAxML

2.7972

23.77%

0.5641

4.1323

49.10%

PartialOrder_InducDist_BioNJ

2.8486

22.72%

0.5518

4.0863

47.74%

PartialOrder_InducDist_BioME

2.8513

22.82%

0.5532

4.0824

47.73%

PartialOrder_InducDist_LST

2.8539

22.67%

0.5509

4.0550

47.26%

PartialOrder_InducDist_FastME

2.8566

22.83%

0.5531

4.0869

47.77%

ClustalW_PhyML

2.8682

23.54%

0.5572

4.2573

49.54%

Prank_InducDist_LST

2.8697

22.53%

0.5476

4.0833

47.19%

Prank_InducDist_BioME

2.8739

22.66%

0.5492

4.1142

47.54%

Prank_InducDist_BioNJ

2.8750

22.63%

0.5485

4.1233

47.68%

Prank_InducDist_FastME

2.8788

22.69%

0.5495

4.1202

47.60%

ClustalW_RAxMLG

2.8821

23.54%

0.5562

4.2710

49.65%

Prank_PrankGuide

2.8831

22.46%

0.5464

4.0804

47.16%

ClustalW_RAxML

2.8915

23.90%

0.5613

4.2771

50.04%

Prograph1_InducDist_BioME

2.9224

22.65%

0.5473

4.1828

47.96%

Prograph1_InducDist_BioNJ

2.9236

22.62%

0.5466

4.1902

48.12%

GlobalJTT_LST

2.9260

23.21%

0.5547

4.1389

48.32%

Prograph1_InducDist_FastME

2.9286

22.66%

0.5473

4.1872

47.99%

GlobalJTT_BioNJ

2.9316

23.34%

0.5552

4.1770

48.81%

Prograph1_InducDist_LST

2.9324

22.57%

0.5458

4.1685

47.77%

GlobalJTT_BioME

2.9341

23.43%

0.5567

4.1737

48.83%

GlobalWAG_BioNJ

2.9416

23.34%

0.5544

4.1848

48.88%

GlobalWAG_LST

2.9424

23.27%

0.5543

4.1488

48.39%

GlobalJTT_FastME

2.9441

23.48%

0.5571

4.1841

48.92%

GlobalWAG_BioME

2.9444

23.44%

0.5562

4.1813

48.84%

GlobalLG_LST

2.9502

23.48%

0.5577

4.1604

48.68%

Global_BioNJ

2.9526

23.48%

0.5563

4.1963

48.99%

Global_LST

2.9530

23.38%

0.5550

4.1574

48.50%

GlobalWAG_FastME

2.9560

23.49%

0.5565

4.1937

48.95%

Global_BioME

2.9562

23.54%

0.5570

4.1932

48.98%

GlobalLG_BioNJ

2.9566

23.58%

0.5580

4.2009

49.19%

Global_FastME

2.9651

23.57%

0.5570

4.2033

49.08%

GlobalLG_BioME

2.9675

23.71%

0.5600

4.2011

49.22%

GlobalLG_FastME

2.9754

23.73%

0.5600

4.2117

49.32%

Global_NJ

2.9831

23.65%

0.5571

4.2241

49.39%

Mafft_InducDist_LST

2.9880

23.41%

0.5536

4.2495

48.94%

LocalJTT_LST

2.9926

23.63%

0.5582

4.1898

48.96%

Mafft_InducDist_BioNJ

2.9979

23.51%

0.5538

4.2970

49.46%

LogDelGlobal_BioME

3.0003

23.90%

0.5606

4.2157

49.62%

Mafft_InducDist_BioME

3.0031

23.58%

0.5549

4.2901

49.32%

LogDelGlobal_LST

3.0041

23.74%

0.5594

4.1930

49.20%

Probabilistic_InducDist_BioME

3.0041

23.75%

0.5574

4.2610

49.52%

Probabilistic_InducDist_BioNJ

3.0045

23.69%

0.5561

4.2621

49.55%

LogDelGlobal_FastME

3.0052

23.91%

0.5606

4.2223

49.67%

Probabilistic_InducDist_FastME

3.0086

23.75%

0.5573

4.2673

49.56%

LocalWAG_LST

3.0094

23.66%

0.5582

4.2019

49.06%

Probabilistic_InducDist_LST

3.0094

23.63%

0.5561

4.2414

49.22%

Mafft_InducDist_FastME

3.0124

23.60%

0.5547

4.2986

49.39%

LogDelGlobal_BioNJ

3.0127

23.83%

0.5593

4.2454

49.82%

LocalJTT_BioNJ

3.0132

23.82%

0.5595

4.2476

49.65%

LocalJTT_BioME

3.0143

23.87%

0.5601

4.2352

49.53%

Local_LST

3.0154

23.67%

0.5572

4.2069

49.07%

LocalLG_LST

3.0189

23.81%

0.5597

4.2167

49.33%

LocalWAG_BioME

3.0214

23.88%

0.5598

4.2421

49.55%

LocalJTT_FastME

3.0218

23.91%

0.5604

4.2426

49.60%

LocalWAG_BioNJ

3.0260

23.83%

0.5588

4.2574

49.71%

Probcons_InducDist_LST

3.0276

23.47%

0.5530

4.2897

49.24%

Local_BioME

3.0277

23.87%

0.5588

4.2485

49.61%

Local_BioNJ

3.0294

23.81%

0.5582

4.2636

49.75%

LocalWAG_FastME

3.0294

23.90%

0.5598

4.2506

49.63%

Local_FastME

3.0370

23.92%

0.5592

4.2565

49.67%

LocalLG_BioME

3.0403

24.10%

0.5619

4.2607

49.91%

LocalLG_BioNJ

3.0424

24.00%

0.5606

4.2776

50.06%

Probcons_InducDist_BioNJ

3.0435

23.58%

0.5530

4.3357

49.75%

LogDelLocal_LST

3.0466

24.00%

0.5606

4.2283

49.59%

Probcons_InducDist_BioME

3.0490

23.66%

0.5542

4.3342

49.70%

Local_NJ

3.0493

23.95%

0.5591

4.2748

49.97%

LogDelLocal_BioME

3.0518

24.18%

0.5620

4.2584

50.05%

ClustalO_InducDist_LST

3.0520

23.70%

0.5546

4.3168

49.59%

LocalLG_FastME

3.0524

24.14%

0.5619

4.2721

50.00%

Probcons_InducDist_FastME

3.0593

23.71%

0.5544

4.3447

49.80%

ClustalO_InducDist_BioNJ

3.0623

23.82%

0.5552

4.3603

50.07%

LogDelLocal_FastME

3.0628

24.22%

0.5621

4.2679

50.13%

ClustalO_InducDist_BioME

3.0674

23.90%

0.5565

4.3558

50.01%

LogDelLocal_BioNJ

3.0684

24.16%

0.5610

4.2913

50.31%

ClustalO_InducDist_FastME

3.0739

23.94%

0.5567

4.3618

50.06%

Poa_InducDist_LST

3.1107

24.27%

0.5591

4.3594

50.08%

Poa_InducDist_BioNJ

3.1240

24.38%

0.5593

4.3979

50.51%

Poa_InducDist_BioME

3.1344

24.49%

0.5605

4.4035

50.54%

Poa_InducDist_FastME

3.1409

24.51%

0.5607

4.4117

50.62%

ClustalW_InducDist_LST

3.2044

24.57%

0.5585

4.5147

51.29%

ClustalW_InducDist_BioNJ

3.2100

24.69%

0.5597

4.5406

51.66%

ClustalW_InducDist_BioME

3.2189

24.79%

0.5609

4.5416

51.61%

ClustalW_InducDist_FastME

3.2252

24.80%

0.5608

4.5485

51.67%

GlobalSynPAM_LST

3.5173

31.10%

0.6338

3.9687

50.34%

LocalSynPAM_LST

3.5271

31.11%

0.6334

3.9732

50.35%

Prograph1_Parsimony

3.6661

27.24%

0.5749

4.8664

55.21%

GlobalSynPAM_BioNJ

3.7288

31.89%

0.6350

4.1870

52.87%

LocalSynPAM_BioNJ

3.7325

31.85%

0.6342

4.1860

52.82%

LocalSynPAM_BioME

3.9135

32.87%

0.6370

4.4534

55.73%

GlobalSynPAM_BioME

3.9186

32.95%

0.6384

4.4700

56.00%

LocalSynPAM_FastME

3.9554

33.01%

0.6372

4.4974

56.11%

GlobalSynPAM_FastME

3.9586

33.08%

0.6386

4.5120

56.32%

Prank_Parsimony

4.1293

30.16%

0.5895

5.2537

59.34%

Probabilistic_Parsimony

4.2511

31.26%

0.5968

5.3638

60.93%

ClustalW_Parsimony

4.2646

31.42%

0.5993

5.3851

61.15%

Mafft_Parsimony

4.3086

31.86%

0.6027

5.3770

61.22%

ClustalO_Parsimony

4.3105

31.79%

0.6007

5.3842

61.27%

Probcons_Parsimony

4.3464

32.23%

0.6050

5.4023

61.60%

Poa_Parsimony

4.3852

32.52%

0.6067

5.4298

61.97%

PartialOrder_Parsimony

4.4223

32.34%

0.6057

5.4796

62.40%

Prograph1_Gap

4.8752

35.60%

0.6223

5.8352

67.80%

Prank_Gap

5.6787

40.79%

0.6442

6.3558

73.73%

PartialOrder_Gap

5.7425

41.19%

0.6477

6.3644

74.18%

Probabilistic_Gap

5.9593

45.15%

0.6773

6.4529

76.15%

Poa_Gap

6.2008

46.51%

0.6820

6.5492

77.39%

ClustalW_Gap

6.2522

47.55%

0.6892

6.5718

77.93%

ClustalO_Gap

6.2747

47.15%

0.6837

6.5759

77.85%

Mafft_Gap

6.2803

46.87%

0.6813

6.5867

77.88%

Probcons_Gap

6.3514

48.04%

0.6901

6.6129

78.48%

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BMC Bioinformatics

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