TB-Profiler result

Run: SRR29055944
Summary

Run ID: SRR29055944

Sample name:

Date: 2025-02-11T18:22:36.967285

Number of reads: 14899

Percentage reads mapped: 26.73

Median coverage: 0.0

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
rpoB 760082 c.276C>T synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760088 c.282C>G synonymous_variant 1.0 rifampicin
rpoB 760091 c.285G>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760101 c.295T>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760104 c.298_300delTCGinsAGC synonymous_variant 1.0 rifampicin
rpoB 760112 c.306T>C synonymous_variant 1.0 rifampicin
rpoB 760118 c.312T>G synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760121 c.315T>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760130 p.Asp108Glu missense_variant 1.0 rifampicin Uncertain significance
rpoB 760136 c.330G>A synonymous_variant 1.0 rifampicin
rpoB 760139 c.333A>T synonymous_variant 1.0 rifampicin
rpoB 760142 c.336C>G synonymous_variant 1.0 rifampicin
rpoB 760178 c.372G>A synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760181 c.375T>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760184 c.378A>G synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760196 c.390C>G synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760235 c.429T>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760244 c.438G>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
rpoB 760283 c.477G>C synonymous_variant 1.0 rifampicin Not assoc w R - Interim
inhA 1673799 c.-403T>C upstream_gene_variant 1.0 isoniazid
ethionamide
inhA 1673802 c.-400A>G upstream_gene_variant 1.0 isoniazid
ethionamide
inhA 1673808 c.-394A>C upstream_gene_variant 1.0 isoniazid
ethionamide
katG 2155691 c.421T>C synonymous_variant 1.0 isoniazid
katG 2155696 p.Ala139Val missense_variant 1.0 isoniazid
katG 2155716 c.396T>G synonymous_variant 1.0 isoniazid
katG 2155722 c.390G>C synonymous_variant 1.0 isoniazid
katG 2155728 c.384G>C synonymous_variant 1.0 isoniazid
katG 2155742 p.Gly124Arg missense_variant 1.0 isoniazid
katG 2155747 p.Ala122Gly missense_variant 1.0 isoniazid
katG 2155749 c.363C>T synonymous_variant 1.0 isoniazid Not assoc w R - Interim
katG 2155752 c.360C>T synonymous_variant 1.0 isoniazid
katG 2155764 p.His116Glu missense_variant 1.0 isoniazid
katG 2155769 p.Ile115Val missense_variant 1.0 isoniazid
katG 2155770 c.342C>G synonymous_variant 1.0 isoniazid
katG 2155782 c.330C>A synonymous_variant 1.0 isoniazid
katG 2155785 c.327T>C synonymous_variant 1.0 isoniazid
katG 2155794 p.Ala106Ser missense_variant 1.0 isoniazid
katG 2155800 c.312G>C synonymous_variant 1.0 isoniazid
katG 2155805 p.Ile103Val missense_variant 1.0 isoniazid Uncertain significance
katG 2155806 c.306T>C synonymous_variant 1.0 isoniazid
katG 2155815 c.297G>C synonymous_variant 1.0 isoniazid
katG 2155824 c.288C>G synonymous_variant 1.0 isoniazid
clpC1 4038410 c.2295C>T synonymous_variant 1.0 pyrazinamide
clpC1 4038419 c.2286T>C synonymous_variant 1.0 pyrazinamide
clpC1 4038433 c.2272C>T synonymous_variant 1.0 pyrazinamide
clpC1 4038434 c.2271G>C synonymous_variant 1.0 pyrazinamide
clpC1 4038444 p.Ala754Lys missense_variant 1.0 pyrazinamide
clpC1 4038446 c.2259T>C synonymous_variant 1.0 pyrazinamide
clpC1 4038456 p.Val750Gln missense_variant 1.0 pyrazinamide
clpC1 4038460 p.Leu749Met missense_variant 1.0 pyrazinamide
clpC1 4038462 p.Ala748Glu missense_variant 1.0 pyrazinamide
clpC1 4038474 p.Ser744Ala missense_variant 1.0 pyrazinamide
clpC1 4038479 c.2226C>G synonymous_variant 1.0 pyrazinamide
clpC1 4038486 p.Gly740Asn missense_variant 1.0 pyrazinamide
clpC1 4038489 p.Ala739Gly missense_variant 1.0 pyrazinamide
clpC1 4038499 p.Ser736Gly missense_variant 1.0 pyrazinamide
clpC1 4038519 p.Arg729Gln missense_variant 1.0 pyrazinamide
clpC1 4038530 p.Glu725Asp missense_variant 1.0 pyrazinamide
clpC1 4038533 p.Arg724Gln missense_variant 1.0 pyrazinamide
clpC1 4038536 c.2169C>G synonymous_variant 1.0 pyrazinamide
clpC1 4038551 c.2154C>G synonymous_variant 1.0 pyrazinamide
clpC1 4038563 c.2142C>T synonymous_variant 1.0 pyrazinamide
clpC1 4038584 c.2121G>A synonymous_variant 1.0 pyrazinamide
clpC1 4038587 c.2118C>G synonymous_variant 1.0 pyrazinamide
clpC1 4038596 c.2109A>G synonymous_variant 1.0 pyrazinamide
clpC1 4038602 c.2103G>C synonymous_variant 1.0 pyrazinamide
clpC1 4038623 c.2082A>G synonymous_variant 1.0 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 1.0 pyrazinamide
clpC1 4038647 c.2058T>G synonymous_variant 1.0 pyrazinamide
clpC1 4038658 p.Lys683Gln missense_variant 1.0 pyrazinamide
clpC1 4038660 c.2044_2045delTCinsAG synonymous_variant 1.0 pyrazinamide
clpC1 4038662 c.2043T>C synonymous_variant 1.0 pyrazinamide
clpC1 4038671 c.2034T>G synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
clpC1 4038679 p.Pro676Ala missense_variant 1.0 pyrazinamide
clpC1 4038683 c.2022T>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
clpC1 4038695 c.2010C>G synonymous_variant 1.0 pyrazinamide
clpC1 4038704 c.2001T>C synonymous_variant 1.0 pyrazinamide
clpC1 4038710 c.1995G>C synonymous_variant 1.0 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 1.0 pyrazinamide
clpC1 4038725 c.1980C>G synonymous_variant 1.0 pyrazinamide