TB-Profiler result

Run: ERR12546193
Summary

Run ID: ERR12546193

Sample name:

Date: 22-02-2024 23:00:35

Number of reads: 3120391

Percentage reads mapped: 99.7

Strain: lineage4.8;lineage4.3.3

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.13
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.89
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.1
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 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.91
rrl 1474425 n.768A>G non_coding_transcript_exon_variant 0.28
rrl 1474428 n.771C>T non_coding_transcript_exon_variant 0.28
rpsA 1834836 p.Met432Thr missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 0.15
PPE35 2168149 p.Pro822Ser missense_variant 0.9
PPE35 2170048 p.Leu189Val missense_variant 0.36
PPE35 2170053 p.Thr187Ser missense_variant 0.34
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086997 p.Thr60Gly missense_variant 0.14
fbiD 3339744 c.627A>C synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.16
rpoA 3878567 c.-60C>G upstream_gene_variant 0.29
rpoA 3878599 c.-92C>G upstream_gene_variant 0.39
rpoA 3878639 c.-132C>G upstream_gene_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.54
embB 4246548 p.Pro12Gln missense_variant 0.57
embB 4246555 c.42G>C synonymous_variant 0.54
embB 4246556 p.Ala15Pro missense_variant 0.54
embB 4246563 p.Leu17Trp missense_variant 0.57
embB 4246567 c.54G>T synonymous_variant 0.54
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.17