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Table 1 Assembly statistics of different k-mer sizes

From: MegaGTA: a sensitive and accurate metagenomic gene-targeted assembler using iterative de Bruijn graphs

 

MegaGTA

Xander

k-mer size

30

36

45

30

36

45

# of contigs

16

7

4

14

7

4

# of gene recoverd

9

5

4

8

4

4

duplication ratio

1.82

1.46

1.00

1.75

1.82

1.00

# misassembled contigs

1

0

0

1

0

0

# partially unaligned contigs

2

0

0

2

0

0

# mismatches per 100kbp

148

150

96

534

278

64

Wall time (second)

101

73

65

1264

1090

573

The gene fraction of each recovered rplB genes (%)

Acinetobacter baumannii

84.8

84.8

Bacteroides vulgatus

82.5

82.5

82.5

82.5

Deinococcus radiodurans

99.6

99.6

81.5

99.6

99.6

81.5

Escherichia coli

81.4

81.4

Propionibacterium acnes

78.1

78.1

Rhodobacter sphaeroides

98.2

64.3

98.2

64.3

Staphylococcus aureus

99.6

99.6

99.6

99.6

99.6

99.6

Staphylococcus epidermidis

99.6

99.6

Streptococcus mutans

55.0

55.0

93.2

93.9

Streptococcus pneumoniae

62.2

62.2