TB-Profiler result

Run: SRR25514991
Summary

Run ID: SRR25514991

Sample name:

Date: 29-01-2024 23:01:46

Number of reads: 7457027

Percentage reads mapped: 99.76

Strain: lineage4

Drug-resistance: Other

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones R gyrA p.Asp94Asn (0.47)
Moxifloxacin R gyrA p.Asp94Asn (0.47)
Ofloxacin R gyrA p.Asp94Asn (0.47)
Levofloxacin R gyrA p.Asp94Asn (0.47)
Ciprofloxacin R gyrA p.Asp94Asn (0.47)
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
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
gyrA 7581 p.Asp94Asn missense_variant 0.47 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
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 8147 p.Asn282Lys missense_variant 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304501 p.Ala524Gly missense_variant 0.98
fbiC 1305357 c.2427C>G synonymous_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168742 p.Gly624Asp missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065207 p.Thr329Pro missense_variant 0.98
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612280 c.837C>T synonymous_variant 0.99
embC 4241376 p.Ala505Val missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247225 p.Arg238Cys missense_variant 0.99
aftB 4268579 c.258G>C synonymous_variant 1.0
ethA 4327376 p.Ala33Gly missense_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0