Run ID: SRR13837748
Sample name:
Date: 2024-10-03T22:35:50.555863
Number of reads: 2938188
Percentage reads mapped: 99.0
Median coverage: 100.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: Sensitive
Lineage | Family | RDs | Frequency |
---|---|---|---|
lineage4 | Euro-American | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | None | 1.0 |
Drug | Resistance | Supporting mutations | WHO confidence | Comment |
---|---|---|---|---|
rifampicin | ||||
isoniazid | ||||
ethambutol | ||||
pyrazinamide | ||||
streptomycin | ||||
fluoroquinolones | ||||
moxifloxacin | ||||
ofloxacin | ||||
levofloxacin | ||||
ciprofloxacin | ||||
aminoglycosides | ||||
amikacin | ||||
capreomycin | ||||
kanamycin | ||||
cycloserine | ||||
ethionamide | ||||
clofazimine | ||||
para-aminosalicylic_acid | ||||
delamanid | ||||
bedaquiline | ||||
linezolid |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|---|---|---|---|---|---|
gyrA | 7877 | p.His192Gln | missense_variant | 0.99 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
mshA | 576146 | p.Val267Leu | missense_variant | 1.0 | isoniazid | |
ethionamide | ||||||
hadA | 732095 | p.Pro56Thr | missense_variant | 1.0 | isoniazid | |
rpoB | 759869 | c.63C>T | synonymous_variant | 1.0 | rifampicin | |
rpoC | 763782 | p.Ser138* | stop_gained | 0.99 | rifampicin | |
rpoC | 764568 | p.Lys400Thr | missense_variant | 1.0 | rifampicin | |
mmpL5 | 777073 | p.Lys470Glu | missense_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
mmpL5 | 777311 | c.1170C>T | synonymous_variant | 0.99 | bedaquiline | |
clofazimine | ||||||
mmpL5 | 778981 | c.-501C>A | upstream_gene_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
rplC | 801436 | p.Ser210Arg | missense_variant | 1.0 | linezolid | |
fbiC | 1303686 | c.756C>G | synonymous_variant | 1.0 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
rrs | 1472605 | n.760G>C | non_coding_transcript_exon_variant | 1.0 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
inhA | 1674376 | p.Pro59Ser | missense_variant | 1.0 | isoniazid | |
ethionamide | ||||||
tlyA | 1917844 | c.-96C>A | upstream_gene_variant | 1.0 | capreomycin | |
tlyA | 1918260 | p.His107Gln | missense_variant | 1.0 | capreomycin | |
bacA | 2064394 | p.Thr112Arg | missense_variant | 1.0 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
katG | 2154461 | p.Ala551Pro | missense_variant | 1.0 | isoniazid | |
Rv1979c | 2222535 | c.630C>G | synonymous_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
kasA | 2518608 | p.Met165Thr | missense_variant | 1.0 | isoniazid | |
eis | 2714211 | c.1122G>A | synonymous_variant | 1.0 | kanamycin | Not assoc w R - Interim |
amikacin | Not assoc w R - Interim | |||||
ahpC | 2726250 | p.Gly20Arg | missense_variant | 1.0 | isoniazid | |
Rv2752c | 3066461 | c.-270C>T | upstream_gene_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
rifampicin | ||||||
ethambutol | ||||||
Rv2752c | 3066855 | c.-664T>G | upstream_gene_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
rifampicin | ||||||
ethambutol | ||||||
whiB7 | 3568939 | c.-260T>C | upstream_gene_variant | 1.0 | kanamycin | |
amikacin | ||||||
streptomycin | ||||||
Rv3236c | 3612518 | p.Tyr200Ser | missense_variant | 1.0 | pyrazinamide | |
fbiB | 3641684 | p.Ser50Arg | missense_variant | 1.0 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
glpK | 4139507 | p.Lys83Asn | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
embC | 4240263 | p.Val134Ala | missense_variant | 1.0 | ethambutol | |
embC | 4240920 | p.Leu353Pro | missense_variant | 1.0 | ethambutol | |
embC | 4241504 | p.Val548Met | missense_variant | 1.0 | ethambutol | Uncertain significance |
embB | 4248000 | p.Asp496Val | missense_variant | 1.0 | ethambutol | |
aftB | 4268715 | p.Leu41Pro | missense_variant | 1.0 | ethambutol | |
ethR | 4327704 | p.Lys52Asn | missense_variant | 1.0 | ethionamide |