Table 3 Variants identified in MGIT and sputum derived sequences from paired samples
| Â | Sputum variants | MGIT variants |
|---|---|---|
Total variants | 24,480 | 25,465 |
Total variants present as HAs (% of total variants) | 265 (1.1%) | 200 (0.8%) |
Median HAs per sample | 5.0 | 4.5 |
Variant type (% all HAs) | ||
 SNP | 217 (81.9%) | 174 (87.0%) |
 MNP | 2 (0.8%) | 0 (0.0%) |
 Insertion | 4 (1.5%) | 1 (0.5%) |
 Deletion | 24 (9.1%) | 15 (7.5%) |
 Complex | 18 (6.8%) | 10 (5.0%) |
Coding change (% all HAs) | ||
 Non-synonymous (missense) | 93 (35.1%) | 77 (38.5%) |
 Non-synonymous (frameshift) | 6 (2.3%) | 7 (3.5%) |
 Synonymous | 57 (21.5%) | 57 (28.5%) |
 Intergenic | 109 (41.1%) | 59 (29.5%) |