TB-Profiler result

Run: ERR12545823

Summary

Run ID: ERR12545823

Sample name:

Date: 22-02-2024 22:32:18

Number of reads: 2716376

Percentage reads mapped: 99.76

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
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 761152 p.Leu449Gln missense_variant 0.2
rpoB 761710 p.Val635Asp missense_variant 0.18
rpoB 761713 p.Val636Asp missense_variant 0.19
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474425 n.768A>G non_coding_transcript_exon_variant 0.32
rrl 1474428 n.771C>T non_coding_transcript_exon_variant 0.32
rpsA 1833641 p.Asn34Asp missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170035 p.Val193Ala missense_variant 0.23
PPE35 2170048 p.Leu189Val missense_variant 0.63
PPE35 2170053 p.Thr187Ser missense_variant 0.61
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518348 c.234A>T synonymous_variant 0.22
kasA 2519057 p.Thr315Ser missense_variant 0.19
kasA 2519062 c.948T>G synonymous_variant 0.17
kasA 2519065 c.951C>A synonymous_variant 0.16
kasA 2519070 p.Asp319Val missense_variant 0.17
folC 2747556 p.Thr15Ala missense_variant 1.0
ald 3086997 p.Thr60Gly missense_variant 0.17
ald 3087899 c.1080G>C synonymous_variant 1.0
fbiD 3339741 c.624G>T synonymous_variant 0.28
fbiD 3339744 c.627A>C synonymous_variant 0.28
rpoA 3878567 c.-60C>G upstream_gene_variant 0.43
rpoA 3878599 c.-92C>G upstream_gene_variant 0.24
rpoA 3878627 c.-120T>G upstream_gene_variant 0.13
rpoA 3878639 c.-132C>G upstream_gene_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.45
embB 4246548 p.Pro12Gln missense_variant 0.5
embB 4246555 c.42G>C synonymous_variant 0.47
embB 4246556 p.Ala15Pro missense_variant 0.47
embB 4246563 p.Leu17Trp missense_variant 0.48
embB 4246567 c.54G>T synonymous_variant 0.48
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0