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Table 2 Statistics of Campylobacter jejuni and Chlamydia psittaci contigs compared with results of three assembly tools using MetaQUAST

From: Identification of Campylobacter jejuni and Chlamydia psittaci from cockatiel (Nymphicus hollandicus) using metagenomics

 

Campylobacter jejuni

Chlamydia psittaci

assembler

IDBA-UD

MEGAHIT

metaSPAdes

IDBA-UD

MEGAHIT

metaSPAdes

N50

669

681

630

1,057

1,104

974

longest contigs (bp)

1,938

3,004

2,880

4,842

5,732

5,398

genome fraction (%)

2.76

3.84

2.95

52.75

61.90

56.41

misassemblies

0

4

0

11

13

1

mismatches per 100 kb

1,462.90

1,395.01

1,383.12

39.13

45.75

40.68

indels per 100 kb

20.71

18.83

15.40

3.23

3.72

8.62

  1. Campylobacter jejuni 15AD75-1 contigs were compared to reference Campylobacter jejuni ZJB021 (accession no. CP048767.1) and Chlamydia psittaci 15AD75-3 contigs to Chlamydia psittaci GIMC 2005 (accession no. CP024451.1)
  2. The best value for each column is indicated in bold
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BMC Genomics

ISSN: 1471-2164

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