TB-Profiler result

Run: ERR4797427
Summary

Run ID: ERR4797427

Sample name:

Date: 2026-01-08T06:49:16.750126

Number of reads: 2785268

Percentage reads mapped: 99.86

Median coverage: 66.0

Strain: lineage3;lineage4.8

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage3 East-African-Indian RD750 15.57
lineage4 Euro-American None 81.36
lineage4.8 Euro-American (mainly T) RD219 85.79
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
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
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
mshA 575424 p.Arg26His missense_variant 0.11 ethionamide Uncertain significance
isoniazid Uncertain significance
Rv0565c 656265 c.1204_1205delAC frameshift_variant 0.71 ethionamide Uncertain significance
nusG 734658 c.405A>G synonymous_variant 0.8 rifampicin Not assoc w R
rpoB 759746 c.-61C>T upstream_gene_variant 0.2 rifampicin Not assoc w R
rpoB 762434 c.2628T>G synonymous_variant 0.28 rifampicin Not assoc w R
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776100 p.Thr794Ile missense_variant 0.37 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
bacA 2062978 p.Gly584Glu missense_variant 0.82 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
bacA 2064373 p.Arg119Gln missense_variant 0.78 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
streptomycin Uncertain significance
katG 2154724 p.Arg463Leu missense_variant 0.27 isoniazid Not assoc w R
PPE35 2168149 p.Pro822Ser missense_variant 0.76 pyrazinamide Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
Rv2477c 2783066 p.His326Arg missense_variant 0.78 amikacin Uncertain significance
ethambutol Uncertain significance
kanamycin Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rifampicin Uncertain significance
streptomycin Uncertain significance
Rv2680 2995848 c.-257G>A upstream_gene_variant 0.84 capreomycin Uncertain significance
ald 3086788 c.-32T>C upstream_gene_variant 0.24 cycloserine Uncertain significance
Rv3236c 3613636 c.-520A>G upstream_gene_variant 0.76 pyrazinamide Not assoc w R
rpoA 3878804 c.-297G>T upstream_gene_variant 0.88 rifampicin Uncertain significance
clpC1 4039729 p.Asp326Asn missense_variant 0.8 pyrazinamide Not assoc w R
glpK 4138622 c.1134C>T synonymous_variant 0.18 ethambutol Not assoc w R
isoniazid Not assoc w R
levofloxacin Not assoc w R
moxifloxacin Not assoc w R
rifampicin Not assoc w R
streptomycin Not assoc w R - Interim
embC 4242075 p.Arg738Gln missense_variant 0.26 ethambutol Not assoc w R
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 amikacin Not assoc w R
capreomycin Not assoc w R
kanamycin Not assoc w R
gid 4407588 c.615A>G synonymous_variant 0.21 streptomycin Not assoc w R