TB-Profiler result

Run: SRR13837630
Summary

Run ID: SRR13837630

Sample name:

Date: 2024-10-03T22:35:48.802866

Number of reads: 297638

Percentage reads mapped: 97.24

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
fgd1 490804 p.Tyr8Asn missense_variant 1.0 pretomanid
delamanid
clofazimine
fgd1 490893 c.111C>T synonymous_variant 0.93 pretomanid
delamanid
clofazimine
Rv0565c 656747 p.Val242Ile missense_variant 1.0 ethionamide
Rv0565c 656828 p.Tyr215His missense_variant 1.0 ethionamide
rpoC 763663 c.294C>A synonymous_variant 0.93 rifampicin
rpoC 766342 c.2973C>A synonymous_variant 1.0 rifampicin
rrl 1474164 n.507C>A non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
PPE35 2170236 c.376_377insG frameshift_variant 1.0 pyrazinamide Uncertain significance
Rv2680 2996652 p.Val183Ala missense_variant 1.0 capreomycin
Rv2752c 3065651 p.Arg181Gly missense_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
Rv3083 3448855 p.Val118Ile missense_variant 1.0 ethionamide
mtrB 3626557 p.Met19Ile missense_variant 1.0 rifampicin
bedaquiline
mtrB 3626629 c.-17_-16insT upstream_gene_variant 1.0 rifampicin
bedaquiline
rpoA 3877765 p.Ala248Gly missense_variant 0.91 rifampicin
embB 4247059 c.546C>G synonymous_variant 1.0 ethambutol
embB 4247144 p.Ser211Pro missense_variant 1.0 ethambutol