TB-Profiler result

Run: ERR10610270
Summary

Run ID: ERR10610270

Sample name:

Date: 22-05-2023 23:46:42

Number of reads: 265260

Percentage reads mapped: 99.16

Strain: lineage4.3.2.1

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 katG p.Ser315Thr (1.00)
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
lineage4.3.2 Euro-American (LAM) LAM3 None 0.98
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
katG 2155168 p.Ser315Thr missense_variant 1.0 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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7545 p.Gly82Arg missense_variant 0.4
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490584 c.-199C>A upstream_gene_variant 0.4
ccsA 620090 p.Gln67Leu missense_variant 0.29
rpoB 759779 c.-28G>A upstream_gene_variant 0.29
rpoB 761681 c.1875G>A synonymous_variant 0.5
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777579 p.Thr301Ile missense_variant 0.67
mmpS5 779687 c.-782C>A upstream_gene_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303756 p.Ala276Thr missense_variant 0.17
Rv1258c 1406823 p.Thr173Ile missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rpsA 1834372 p.Lys277Asn missense_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155938 p.Met58Ile missense_variant 0.29
PPE35 2170197 p.Ala139Glu missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726230 p.Tyr13Cys missense_variant 0.18
ahpC 2726293 p.Tyr34Cys missense_variant 1.0
Rv2752c 3065728 p.Ala155Val missense_variant 0.29
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087484 p.Ala222Asp missense_variant 0.33
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642439 p.Thr302Lys missense_variant 0.67
clpC1 4038287 c.2418C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0