TB-Profiler result

Run: ERR7363090
Summary

Run ID: ERR7363090

Sample name:

Date: 18-05-2023 11:49:08

Number of reads: 2481801

Percentage reads mapped: 99.67

Strain: lineage4.3.4.2;lineage4.1.2.1

Drug-resistance: Sensitive

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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 0.66
lineage4.1 Euro-American T;X;H None 0.36
lineage4.1.2 Euro-American T;H None 0.29
lineage4.3.4 Euro-American (LAM) LAM RD174 0.66
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.37
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.65
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 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.33
mshA 575679 p.Asn111Ser missense_variant 0.29
mshA 576108 p.Ala254Gly missense_variant 0.6
rpoB 760115 c.309C>T synonymous_variant 0.38
rpoC 764995 c.1626C>G synonymous_variant 0.65
rpoC 765150 p.Gly594Glu missense_variant 0.34
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407489 c.-149G>A upstream_gene_variant 0.27
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153936 p.Ala726Thr missense_variant 0.3
PPE35 2170065 p.Ala183Gly missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.42
pepQ 2860159 p.Ala87Gly missense_variant 0.24
Rv2752c 3065293 p.Val300Ala missense_variant 0.68
Rv2752c 3066299 c.-108C>T upstream_gene_variant 0.27
thyA 3073868 p.Thr202Ala missense_variant 0.68
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.73
clpC1 4038287 c.2418C>T synonymous_variant 0.64
embC 4239763 c.-100C>T upstream_gene_variant 0.69
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.25
embA 4244194 p.Gly321Ala missense_variant 0.65
embB 4246584 p.Arg24Pro missense_variant 0.43
embB 4247884 c.1371C>A synonymous_variant 0.63
aftB 4268468 c.369G>A synonymous_variant 0.66
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.69