TB-Profiler result

Run: ERR10610321

Summary

Run ID: ERR10610321

Sample name:

Date: 23-05-2023 00:40:40

Number of reads: 145608

Percentage reads mapped: 98.61

Strain: lineage4

Drug-resistance: HR-TB


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid R fabG1 c.-15C>T (1.00), inhA p.Ile194Thr (1.00), katG p.Gln127Pro (1.00)
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones R gyrB p.Arg446Cys (1.00)
Moxifloxacin R gyrB p.Arg446Cys (1.00)
Ofloxacin R gyrB p.Arg446Cys (1.00)
Levofloxacin R gyrB p.Arg446Cys (1.00)
Ciprofloxacin R gyrB p.Arg446Cys (1.00)
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide R fabG1 c.-15C>T (1.00), inhA p.Ile194Thr (1.00)
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
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
gyrB 6575 p.Arg446Cys missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
inhA 1674782 p.Ile194Thr missense_variant 1.0 isoniazid, ethionamide
katG 2155732 p.Gln127Pro missense_variant 1.0 isoniazid
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
gyrA 8480 c.1179C>A synonymous_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781821 p.Lys88Glu missense_variant 0.29
embR 1416318 p.Leu344Phe missense_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
inhA 1674253 p.Asp18His missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169624 p.Gly330Asp missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288944 p.Thr100Pro missense_variant 1.0
ahpC 2726137 c.-56G>A upstream_gene_variant 0.33
Rv2752c 3065616 c.576C>T synonymous_variant 0.5
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fbiB 3642146 p.Leu204Phe missense_variant 0.4
fbiB 3642548 c.1014C>T synonymous_variant 0.4
fbiB 3642874 p.Leu447Arg missense_variant 1.0
rpoA 3878641 c.-135delG upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248783 p.Pro757Arg missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338599 c.-78A>C upstream_gene_variant 1.0
gid 4407766 p.Thr146Lys missense_variant 1.0