TB-Profiler result

Run: ERR9806774
Summary

Run ID: ERR9806774

Sample name:

Date: 18-05-2023 14:43:05

Number of reads: 259845

Percentage reads mapped: 99.14

Strain:

Drug-resistance: RR-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 (1.00)
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
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
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 6669 p.Ala477Gly missense_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491444 p.Ser221Phe missense_variant 0.5
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 763609 c.240C>T synonymous_variant 0.22
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775835 c.2646C>A synonymous_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2221925 p.Asp414Tyr missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ribD 2986676 c.-163C>T upstream_gene_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087465 p.His216Tyr missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4039280 c.1425G>A synonymous_variant 0.67
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245628 p.Pro799Leu missense_variant 0.33
embB 4249105 c.2592C>G synonymous_variant 1.0
ubiA 4269721 p.Ala38Val missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0