Table 3

Assembly results, multi-cell E.coli dataset (contigs of length ≥ 200 are used).

Statistics

BayesHammer

BayesHammer (sca_old)

Hammer, expanded

Hammer, no expansion

Hammer, no expansion (sca_old)

Hammer (sca_old)

Quake


Multi-cell E. coli, 600 coverage, reference length 4639675, reference GC content 50.79%


# contigs (≥ 500 bp)

103

102

119

238

213

115

165

# contigs (≥ 1000 bp)

91

90

99

192

171

96

156

Total length (≥ 500 bp)

4641845

4641790

4626515

4730338

4817457

4627067

4543682

Total length (≥ 1000 bp)

4633361

4633306

4611745

4696966

4787210

4612838

4537565

# contigs

122

121

146

325

303

141

204

Largest contig

285113

285113

218217

210240

210240

218217

165487

Total length

4647325

4647270

4635156

4756088

4844208

4635349

4555015

N50

132645

132645

113608

59167

73113

113608

58777

NG50

132645

132645

113608

59669

80085

113608

57174

NA50

132645

132645

113608

59167

73113

113608

58777

NGA50

132645

132645

113608

59669

80085

113608

57174

# misassemblies

3

3

4

4

7

5

0

# misassembled contigs

3

3

4

4

7

5

0

Misassembled contigs length

44466

44466

57908

15259

30901

60418

0

Genome covered (%)

99.440

99.440

99.383

98.891

98.925

99.385

98.747

GC (%)

50.78

50.77

50.77

50.73

50.71

50.77

50.75

N's (%)

0.00000

0.00000

0.00000

0.00000

0.00000

0.00000

0.00000

# mismatches per 100 kbp

8.55

8.55

13.76

44.46

44.33

13.76

1.21

# indels per 100 kbp

0.99

0.99

1.14

0.76

0.97

1.14

0.20

# genes

4254+45 part

4254+45 part

4245+56 part

4196+72 part

4204+68 part

4245+56 part

4174+62 part


Nikolenko et al. BMC Genomics 2013 14(Suppl 1):S7   doi:10.1186/1471-2164-14-S1-S7

Open Data