TB-Profiler result

Run: ERR4799796

Summary

Run ID: ERR4799796

Sample name:

Date: 20-10-2023 03:13:24

Number of reads: 5418534

Percentage reads mapped: 99.62

Strain: lineage4.8

Drug-resistance: XDR-TB


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin R rpoB p.Ser450Leu (0.98)
Isoniazid R katG p.Ser315Thr (0.98)
Ethambutol R embB p.Gln497Lys (0.98)
Pyrazinamide R pncA p.Val155Met (0.98)
Streptomycin R rpsL p.Lys43Arg (0.99)
Fluoroquinolones R gyrA p.Ser91Pro (0.96)
Moxifloxacin R gyrA p.Ser91Pro (0.96)
Ofloxacin R gyrA p.Ser91Pro (0.96)
Levofloxacin R gyrA p.Ser91Pro (0.96)
Ciprofloxacin R gyrA p.Ser91Pro (0.96)
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine R mmpR5 c.198dupG (0.53)
Para-aminosalicylic_acid
Delamanid
Bedaquiline R mmpR5 c.198dupG (0.53)
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 0.96
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
gyrA 7572 p.Ser91Pro missense_variant 0.96 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761155 p.Ser450Leu missense_variant 0.98 rifampicin
mmpR5 779181 c.198dupG frameshift_variant 0.53 clofazimine, bedaquiline
rpsL 781687 p.Lys43Arg missense_variant 0.99 streptomycin
katG 2155168 p.Ser315Thr missense_variant 0.98 isoniazid
pncA 2288779 p.Val155Met missense_variant 0.98 pyrazinamide
embB 4248002 p.Gln497Lys missense_variant 0.98 ethambutol
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 5332 c.93C>T synonymous_variant 0.97
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8168 p.Glu289Asp missense_variant 0.95
rpoC 766485 p.Val1039Ala missense_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778982 c.-502A>G upstream_gene_variant 0.19
mmpR5 779216 p.Gln76Arg missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
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 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715340 c.-8C>T upstream_gene_variant 0.97
folC 2747470 p.Ile43Ala missense_variant 0.97
clpC1 4039729 p.Asp326Asn missense_variant 0.98
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245417 p.Gly729Arg missense_variant 0.97
ubiA 4269298 p.Ile179Thr missense_variant 0.97
ethA 4327301 p.Asp58Gly missense_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 0.99