TB-Profiler result

Run: ERR4817847

Summary

Run ID: ERR4817847

Sample name:

Date: 20-10-2023 08:30:30

Number of reads: 2502312

Percentage reads mapped: 93.18

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 0.97
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
gyrB 5524 c.285C>A synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.13
rpoB 760101 c.295T>C synonymous_variant 0.13
rpoB 760112 c.306T>C synonymous_variant 0.13
rpoB 760121 c.315T>C synonymous_variant 0.13
rpoB 760181 c.375T>C synonymous_variant 0.15
rpoB 760184 c.378A>G synonymous_variant 0.15
rpoB 760196 c.390C>G synonymous_variant 0.13
rpoB 762101 c.2295C>G synonymous_variant 0.14
rpoB 762114 p.Ile770Val missense_variant 0.13
rpoB 762131 c.2325C>G synonymous_variant 0.13
rpoB 762140 c.2334G>C synonymous_variant 0.13
rpoB 762149 c.2343G>C synonymous_variant 0.12
rpoB 762167 c.2361T>C synonymous_variant 0.12
rpoB 762176 c.2370T>C synonymous_variant 0.13
rpoC 763085 c.-285C>G upstream_gene_variant 0.13
rpoC 763115 c.-255T>C upstream_gene_variant 0.13
rpoC 764497 c.1128A>G synonymous_variant 0.12
rpoC 766312 c.2943T>G synonymous_variant 0.12
rpoC 766345 c.2976T>C synonymous_variant 0.17
rpoC 766348 c.2979A>G synonymous_variant 0.17
rpoC 766363 c.2994G>C synonymous_variant 0.16
rpoC 766381 c.3012C>T synonymous_variant 0.19
rpoC 766384 c.3015A>G synonymous_variant 0.18
rpoC 766390 c.3021C>T synonymous_variant 0.12
rpoC 766426 c.3057C>T synonymous_variant 0.15
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
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.21
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
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 4038878 c.1827A>G synonymous_variant 0.16
clpC1 4038908 c.1797C>G synonymous_variant 0.13
clpC1 4038956 c.1749T>C synonymous_variant 0.13
clpC1 4038965 c.1740T>C synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247470 c.957T>C synonymous_variant 0.16
embB 4247512 c.999T>C synonymous_variant 0.13
embB 4249354 c.2841G>C synonymous_variant 0.98
whiB6 4338590 c.-69A>T upstream_gene_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 0.93