TB-Profiler result

Run: ERR1035304

Summary

Run ID: ERR1035304

Sample name:

Date: 20-10-2023 21:38:01

Number of reads: 6437913

Percentage reads mapped: 99.56

Strain: lineage4.3.3

Drug-resistance: MDR-TB


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin R rpoB p.Gln432Leu (0.99)
Isoniazid R katG p.Ser315Thr (1.00)
Ethambutol R embB p.Gly406Ala (1.00)
Pyrazinamide R pncA c.380_388delAGGTCGATG (1.00)
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine R ald c.436_437dupGC (0.21)
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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.99
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
rpoB 761101 p.Gln432Leu missense_variant 0.99 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288853 c.380_388delAGGTCGATG disruptive_inframe_deletion 1.0 pyrazinamide
ald 3087252 c.436_437dupGC frameshift_variant 0.21 cycloserine
embB 4247730 p.Gly406Ala missense_variant 1.0 ethambutol
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 7581 p.Asp94Ser missense_variant 0.18
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491616 p.Glu278Asp missense_variant 1.0
rpoC 764916 p.Leu516Pro missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781676 c.117C>T synonymous_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834985 c.1445dupG frameshift_variant&stop_lost&splice_region_variant 0.41
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.99
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2747196 p.Asp135Asn missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074133 c.339C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039554 p.Thr384Ser missense_variant 1.0
embC 4242182 p.Ala774Ser missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4326135 p.Pro447Ala missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407790 p.Ala138Glu missense_variant 0.99
gid 4408156 p.Leu16Arg missense_variant 1.0