TB-Profiler result

Run: SRR5067266
Summary

Run ID: SRR5067266

Sample name:

Date: 21-10-2023 04:32:57

Number of reads: 2623774

Percentage reads mapped: 99.56

Strain: lineage4.5;lineage4.3.3

Drug-resistance: Sensitive

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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
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 0.85
lineage4.3 Euro-American (LAM) mainly-LAM None 0.1
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.12
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
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 0.84
gyrA 8040 p.Gly247Ser missense_variant 0.2
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9383 c.2082T>G synonymous_variant 0.8
ccsA 620029 c.139C>T synonymous_variant 0.9
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776438 p.Asp681Glu missense_variant 0.84
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 0.84
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.2
Rv2752c 3065824 p.Pro123Leu missense_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878051 p.Arg153Trp missense_variant 0.86
clpC1 4038287 c.2418C>T synonymous_variant 0.11
clpC1 4038318 p.Pro796Leu missense_variant 0.9
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.22