TB-Profiler result

Run: SRR13861413
Summary

Run ID: SRR13861413

Sample name:

Date: 2024-10-03T16:15:09.179131

Number of reads: 233548

Percentage reads mapped: 5.84

Median coverage: 8.0

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
gyrA 6976 c.-326A>G upstream_gene_variant 1.0 levofloxacin
moxifloxacin
ccsA 619735 c.-156G>C upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
mmpL5 776796 p.Val562Ala missense_variant 1.0 bedaquiline
clofazimine
Rv1258c 1407009 p.Ala111Asp missense_variant 1.0 streptomycin
pyrazinamide
isoniazid
lpqB 3624303 p.Leu203Arg missense_variant 0.92 rifampicin
bedaquiline
panD 4044544 c.-263G>C upstream_gene_variant 1.0 pyrazinamide
embC 4241026 c.1164C>G synonymous_variant 1.0 ethambutol