TB-Profiler result

Run: SRR13837614
Summary

Run ID: SRR13837614

Sample name:

Date: 2025-02-11T16:23:05.390101

Number of reads: 297048

Percentage reads mapped: 97.06

Median coverage: 10.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

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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
dnaA 1425 c.1426dupG frameshift_variant 1.0 isoniazid Uncertain significance
rpoB 760728 p.Tyr308Asn missense_variant 1.0 rifampicin
rpoC 766155 p.Ala929Val missense_variant 1.0 rifampicin
rpsA 1834275 p.Ile245Thr missense_variant 1.0 pyrazinamide
tlyA 1917936 c.-4C>A upstream_gene_variant 1.0 capreomycin
bacA 2064894 c.-166C>G upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
ndh 2101676 p.Ala456Val missense_variant 1.0 isoniazid
delamanid
ethionamide
PPE35 2170823 c.-212delT upstream_gene_variant 1.0 pyrazinamide
pncA 2289356 c.-115G>T upstream_gene_variant 1.0 pyrazinamide
kasA 2518234 p.Glu40Asp missense_variant 1.0 isoniazid
Rv2752c 3064837 p.Leu452Trp missense_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
rpoA 3877756 p.Ile251Thr missense_variant 0.93 rifampicin
rpoA 3878065 p.Pro148Arg missense_variant 1.0 rifampicin
clpC1 4040538 p.Leu56Arg missense_variant 1.0 pyrazinamide
aftB 4267498 p.Glu447Lys missense_variant 1.0 ethambutol Uncertain significance