TB-Profiler result

Run: SRR6045817
Summary

Run ID: SRR6045817

Sample name:

Date: 20-10-2023 18:15:33

Number of reads: 1163280

Percentage reads mapped: 93.32

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
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
rpoB 761915 p.Asp703Glu missense_variant 0.12
rpoB 761916 p.Asp704Asn missense_variant 0.12
rpoB 761954 c.2148C>G synonymous_variant 0.12
rpoC 762995 c.-375G>T upstream_gene_variant 0.15
rpoC 763028 c.-342T>C upstream_gene_variant 0.16
rpoC 763031 c.-339T>G upstream_gene_variant 0.17
rpoC 763034 c.-336C>G upstream_gene_variant 0.18
rpoC 763040 c.-330C>G upstream_gene_variant 0.17
rpoC 763070 c.-300T>C upstream_gene_variant 0.21
rpoC 763085 c.-285C>G upstream_gene_variant 0.22
rpoC 764593 c.1224C>T synonymous_variant 0.14
rpoC 764611 c.1242G>T synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834451 c.910T>C synonymous_variant 0.12
rpsA 1834546 c.1005T>C synonymous_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
clpC1 4038596 c.2109A>G synonymous_variant 0.17
clpC1 4039729 p.Asp326Asn missense_variant 0.94
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0