TB-Profiler result

Run: ERR1035206
Summary

Run ID: ERR1035206

Sample name:

Date: 20-10-2023 23:07:23

Number of reads: 3398630

Percentage reads mapped: 99.59

Strain: lineage4.8

Drug-resistance: HR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid R ahpC c.-52C>T (0.96)
Ethambutol
Pyrazinamide R pncA p.Asp49Glu (0.99)
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
pncA 2289095 p.Asp49Glu missense_variant 0.99 pyrazinamide
ahpC 2726141 c.-52C>T upstream_gene_variant 0.96 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
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155426 c.680_685delTGATCT disruptive_inframe_deletion 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethR 4327610 p.Ser21Cys missense_variant 0.98
whiB6 4338594 c.-73T>A upstream_gene_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408285 c.-83C>G upstream_gene_variant 0.99
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 0.99