TB-Profiler result

Run: ERR4817562
Summary

Run ID: ERR4817562

Sample name:

Date: 20-10-2023 08:25:43

Number of reads: 4591317

Percentage reads mapped: 99.54

Strain: lineage4.5

Drug-resistance: HR-TB

Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid R ahpC c.-57C>T (0.45)
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
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
lineage4.5 Euro-American H;T RD122 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
ahpC 2726136 c.-57C>T upstream_gene_variant 0.45 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407380 c.-40C>T upstream_gene_variant 0.38
embR 1416611 p.Thr246Lys missense_variant 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833734 p.Ala65Thr missense_variant 0.54
rpsA 1834112 p.Leu191Val missense_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 0.99
katG 2154144 c.1968C>T synonymous_variant 0.5
katG 2155844 p.Trp90Arg missense_variant 0.47
katG 2155847 p.Pro89Ser missense_variant 0.46
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714211 c.1122G>A synonymous_variant 0.51
fbiD 3339480 p.Gln121His missense_variant 0.53
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243482 p.Ala84Ser missense_variant 0.51
whiB6 4338595 c.-75delG upstream_gene_variant 1.0