TB-Profiler result

Run: SRR13837930
Summary

Run ID: SRR13837930

Sample name:

Date: 2025-03-07T10:13:30.061127

Number of reads: 2936536

Percentage reads mapped: 100.0

Median coverage: 99.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

Download CSV Download TXT Download JSON
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.9 Euro-American (H37Rv-like) None 1.0
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
Rv0565c 657081 c.390G>C synonymous_variant 1.0 ethionamide Uncertain significance
nusG 733855 c.-399G>A upstream_gene_variant 1.0 rifampicin Uncertain significance
rpoB 759613 c.-194C>A upstream_gene_variant 0.99 rifampicin Uncertain significance
rpoB 759854 p.Ser16Arg missense_variant 1.0 rifampicin Uncertain significance
rpoC 765119 p.Gly584Arg missense_variant 1.0 rifampicin Uncertain significance
rpoC 766845 p.Arg1159His missense_variant 1.0 rifampicin Uncertain significance
mmpL5 776280 p.Arg734His missense_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
mmpR5 778208 c.-782C>G upstream_gene_variant 1.0 bedaquiline Uncertain significance
clofazimine Uncertain significance
fbiC 1305195 c.2265T>G synonymous_variant 1.0 clofazimine Uncertain significance
delamanid Uncertain significance
pretomanid Uncertain significance
Rv1258c 1406120 c.1221C>T synonymous_variant 0.99 isoniazid Uncertain significance
pyrazinamide Uncertain significance
streptomycin Uncertain significance
embR 1417526 c.-180delA upstream_gene_variant 1.0 ethambutol Uncertain significance
rrl 1473960 n.303T>G non_coding_transcript_exon_variant 1.0 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1833623 c.82_83insG frameshift_variant 1.0 pyrazinamide Uncertain significance
tlyA 1918515 c.576C>T synonymous_variant 1.0 capreomycin Uncertain significance
tlyA 1918620 c.681C>A synonymous_variant 1.0 capreomycin Uncertain significance
katG 2155055 p.Tyr353Asn missense_variant 1.0 isoniazid Uncertain significance
PPE35 2169626 c.987C>T synonymous_variant 1.0 pyrazinamide Uncertain significance
eis 2714776 p.Val186Glu missense_variant 1.0 amikacin Uncertain significance
kanamycin Uncertain significance
ahpC 2726084 c.-109C>A upstream_gene_variant 0.99 isoniazid Uncertain significance
Rv2477c 2782646 c.1396delC frameshift_variant 1.0 amikacin Uncertain significance
ethambutol Uncertain significance
kanamycin Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rifampicin Uncertain significance
streptomycin Uncertain significance
Rv2752c 3065052 p.Glu380Asp missense_variant 1.0 ethambutol Uncertain significance
isoniazid Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rifampicin Uncertain significance
Rv2752c 3065097 c.1095C>T synonymous_variant 1.0 ethambutol Uncertain significance
isoniazid Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
rifampicin Uncertain significance
thyA 3073902 c.570C>G synonymous_variant 1.0 para-aminosalicylic_acid Uncertain significance
lpqB 3623705 c.1205dupA frameshift_variant 1.0 bedaquiline Uncertain significance
rifampicin Uncertain significance
mtrB 3624963 p.Pro551Thr missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Uncertain significance
panD 4044175 p.Ala36Asp missense_variant 1.0 pyrazinamide Uncertain significance
embC 4240583 p.Thr241Ala missense_variant 1.0 ethambutol Uncertain significance
whiB6 4338609 c.-88T>G upstream_gene_variant 1.0 amikacin Uncertain significance
capreomycin Uncertain significance
kanamycin Uncertain significance
gid 4407696 c.507C>T synonymous_variant 1.0 streptomycin Not assoc w R - Interim