TB-Profiler result

Run: SRR13837617
Summary

Run ID: SRR13837617

Sample name:

Date: 2024-04-16T00:58:39.355806

Number of reads: 293868

Percentage reads mapped: 95.02

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
Rv1129c 1253885 p.Lys217Arg missense_variant 1.0 moxifloxacin
levofloxacin
rifampicin
isoniazid
sigE 1364782 p.Val124Leu missense_variant 1.0 pyrazinamide
embR 1417793 c.-446C>T upstream_gene_variant 1.0 ethambutol
rrs 1473066 n.1221A>T non_coding_transcript_exon_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473370 n.1525T>C non_coding_transcript_exon_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
inhA 1674784 p.Arg195Gly missense_variant 1.0 ethionamide
isoniazid
kasA 2519223 p.Thr370Ile missense_variant 1.0 isoniazid
Rv2681 2997515 c.777T>G synonymous_variant 1.0 capreomycin
Rv2681 2997779 c.1041C>G synonymous_variant 1.0 capreomycin
Rv2752c 3065644 p.Thr183Ser missense_variant 1.0 ethambutol
moxifloxacin
levofloxacin
rifampicin
isoniazid
thyA 3074595 c.-124C>A upstream_gene_variant 1.0 para-aminosalicylic_acid
embC 4242810 p.Leu983Gln missense_variant 1.0 ethambutol
embB 4249551 p.Arg1013Leu missense_variant 1.0 ethambutol