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Table 4 Linear regression results for 100 genomes, between the genome quality indicators and, for various read lengths, the number of repeats in the genome, the total repeat length of the genome and the percentage of the total repeat length of the genome

From: A cost-effective and universal strategy for complete prokaryotic genome sequencing proposed by computer simulation

 

Repeat length

Repeat length (>300)

Repeat length (>700)

 

R2

P-value

R2

P-value

R2

P-value

6XSE+10XPE, 400bp

      

  Number of Contigs

0.5657

2.2E-16

0.7842

2.2E-16

0.7948

2.2E-16

  N50 size of Contigs

0.07932

0.00453

0.1107

0.00072

0.1114

0.0006918

  Genome coverage

0.1298

0.0002314

0.2295

4.591E-07

0.2545

*.732E-08

  SNP error rate

0.04819

0.0282

0.09175

0.002189

0.08484

0.003282

  Indel error rate

0.002337

0.6329

0.04038

0.53

0.003728

0.5462

  se gene duplication

0.2951

5.227E-09

0.2969

4.598E-09

0.2158

0.000001124

  False gene loss rate

0.1978

0.00003553

0.338

2.264E-10

0.3408

1.827E-10

  Number of Scaffolds

0.3363

2.565E-10

0.462

7.497E-15

0.4845

9.023E-16

10XSE+10XPE, 400bp

      

  Number of Contigs

0.4762

2E-15

0.6908

2.2E-16

0.7164

2.2E-16

  N50 size of Contigs

0.05194

0.02258

0.09437

0.001878

0.09966

0.001377

  Genome coverage

0.1185

0.0004542

0.2119

0.000001443

0.2358

0.000000305

  SNP error rate

0.02702

0.1022

0.06257

0.01207

0.06363

0.01134

  Inde1 error rate

0.0006153

0.8065

0.001432

0.7085

0.001119

0.7411

  se gene duplication

0.3133

1.414E-09

0.324

6.457E-10

0.2426

1.936E-07

  False gene loss rate

0.1232

0.0003429

0.2021

0.000002708

0.1943

0.000004425

  Number of Scaffolds

0.2813

1.384E-08

0.4074

9.141E-13

0.4424

4.417E-14

15XSE+10XPE, 400bp

      

  Number of Contigs

0.453

1.709E-14

0.6676

2.2E-16

0.7008

2.2E-16

  N50 size of Contigs

0.01038

0.3131

0.07265

0.006691

0.07771

0.004978

  Genome coverage

0.1149

0.0005616

0.02068

0.00002001

0.2323

3.837E-07

  SNP error rate

0.0001226

0.913

0.0004724

0.83

0.0002939

0.8656

  Inde1 error rate

0.0001226

0.913

0.0004724

0.83

0.0002939

0.8656

  se gene duplication

0.3217

7.638E-1C

0.3318

3.595E-10

0.2468

1.465E-07

  False gene loss rate

0.1541

0.00005366

0.2604

5.834E-08

0.2642

4.519E-08

  Number of Scaffolds

0.4023

1.399E-12

0.5996

2.2E-16

0.5878

2.2E-16

6XSE+10XPE, 400bp

      

  Number of Contigs

0.448

2.696E-14

0.6554

2.2E-16

0.6869

2.2E-16

  N50 size of Contigs

0.05142

0.02328

0.09641

0.001666

0.1006

0.001301

  Genome coverage

0.1152

0.000551

0.2076

0.000019

0.2338

3.467E-07

  SNP error rate

0.2124

0.000001398

0.3199

8.7E-10

0.3315

3.678E-10

  Inde1 error rate

0.00001646

0.968

0.00016

0.9006

0.00006389

0.937

  se gene duplication

0.3492

9.627E-11

0.3761

1.182E-11

0.2922

6.453E-09

  False gene loss rate

0.1163

0.000515

0.2011

0.000002892

0.1938

0.000004569

  Number of Scaffolds

0.3125

1.495E-09

0.458

1.09E-14

0.4898

5.431E-16