Table 3.
Genomic assembly profiles of M. tuberculosis
| Groupa | # Contigsb | # Genomesc | % ‘Good’d | Total contigse | Usable contigsf | Median N50g |
|---|---|---|---|---|---|---|
| 1 | 1 | 523 | 100 | 523 | 523 | 4411217 |
| 2 | 2-9 | 788 | 99.5 | 4434 | 3186 | 2575182 |
| 3 | 10-99 | 5301 | 99.9 | 322785 | 171895 | 132057 |
| 4 | 100-249 | 11750 | 99.9 | 1995446 | 677407 | 81101 |
| 5 | 250-499 | 7026 | 99.5 | 2335349 | 450625 | 64634 |
| 6 | 500-749 | 1208 | 97.4 | 724170 | 77638 | 61910 |
| 7 | 750-999 | 584 | 94.0 | 501681 | 34738 | 64010 |
| 8 | 1000-9999 | 1915 | 0.05 | 5393139 | 117683 | 44747 |
| 9 | 10000+ | 184 | 0.00 | 3571408 | 13010 | 1516 |
aEach group is a bin containing the number of M. tuberculosis genome projects with different contig numbers and the overall quality. All data are from PATRIC (https://www.patricbrc.org).
bThe range of contig numbers for M. tuberculosis genome projects in each group
cThe number of M. tuberculosis genome projects containing the range of contig numbers
dThe percentage of sequencing projects designated as ‘good’ quality by PATRIC
eThe total number of contigs from all projects in that group
fThe total number of contigs above threshold length (20 kb) for DEPhT analysis
gMedian of N50 for each group, which is the sequence length of the shortest contig at 50% of the total genome length.