Does Choice Matter? Reference-Based Alignment for Molecular Epidemiology of Tuberculosis

Supplemental material

• Supplemental file 1 -

  Fig. S1 (Maximum likelihood trees with 1,000 bootstrap replicates, with branches below an 80% bootstrap threshold collapsed)

  PDF, 128K

• Supplemental file 2 -

  Table S1 (Average nucleotide identity divergence between reference genomes)

  PDF, 80K

• Supplemental file 3 -

  Table S2 (Genome coverage for each isolate)

  PDF, 89K

• Supplemental file 4 -

  Table S3 (Depth of coverage for each isolate)

  PDF, 90K

• Supplemental file 5 -

  Table S4 (Clusters and color scheme used in figures)

  PDF, 103K

• Supplemental file 6 -

  Supplemental references

  PDF, 88K