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Table 1 Accuracy metrics for different de novo and reference-based mitochondrial genome assemblies using nanopore long reads exclusively in the Caribbean spiny lobster Panulirus argus

From: Yes, we can use it: a formal test on the accuracy of low-pass nanopore long-read sequencing for mitophylogenomics and barcoding research using the Caribbean spiny lobster Panulirus argus

Assembly Pipeline

Contigs

Length

Coverage

p-dist

Errors

Canu - general

Canu - specific

Flye +1p

circular

15,662

35x

0.000191632

77

Flye +1p + Medaka

circular

15,717

35x

6.37024E-05

51

Flye +5p

circular

15,662

35x

0.000191632

77

Flye +5p + Medaka

circular

15,717

35x

6.37024E-05

51

Flye +10p

circular

15,661

35x

0.000191632

76

Flye +10p + Medaka

circular

15,717

35x

6.37024E-05

51

Unicycler - N

circular

15,718

0.411xa

0.000637552

69

Unicycler - N + Medaka

circular

15,724

0.411xa

0.000637552

53

Unicycler - B

circular

15,718

0.411xa

0.000637552

59

Unicycler - B + Medaka

circular

15,724

0.411xa

0.00012738

53

Unicycler - C

circular

15,718

0.411xa

0.00012738

59

Unicycler - C + Medaka

circular

15,724

0.411xa

0.00012738

53

Rebaler - P. versicolor

circular

15,709

30.06x

0.000191253

70

Rebaler - P. versicolor + Medaka

circular

15,725

30.06x

0.000191241

55

Rebaler - P. cygnus

circular

15,720

34.13x

0.000318756

72

Rebaler - P. cygnus + Medaka

circular

15,723

34.13x

6.36862E-05

57

Rebaler - P. argus

circular

15,713

40.75x

6.36821E-05

69

Rebaler - P. argus + Medaka

circular

15,721

40.75x

0.00012738

55

Reference mtDNA

circular

15,739

720x

  1. aUnicycler normalises the depth of contigs to the median value