TB-Profiler result

Run: ERR11465134
Summary

Run ID: ERR11465134

Sample name:

Date: 09-01-2024 18:50:06

Number of reads: 8425733

Percentage reads mapped: 99.65

Strain: lineage4.4.1.1;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
lineage4.1 Euro-American T;X;H None 0.37
lineage4.4 Euro-American S;T None 0.63
lineage4.1.2 Euro-American T;H None 0.38
lineage4.4.1 Euro-American (S-type) S;T None 0.64
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.39
lineage4.4.1.1 Euro-American S;Orphans None 0.63
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 0.99
gyrA 9138 p.Gln613Glu missense_variant 0.63
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.39
mshA 575679 p.Asn111Ser missense_variant 0.39
mshA 576108 p.Ala254Gly missense_variant 0.15
rpoB 760115 c.309C>T synonymous_variant 0.35
rpoC 765150 p.Gly594Glu missense_variant 0.52
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777416 c.1065G>T synonymous_variant 0.59
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416821 p.Ala176Gly missense_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.98
ndh 2102990 p.Val18Ala missense_variant 0.61
PPE35 2168479 p.Thr712Pro missense_variant 0.49
PPE35 2169840 p.Gly258Asp missense_variant 0.8
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289270 c.-29G>A upstream_gene_variant 0.61
kasA 2518076 c.-39C>T upstream_gene_variant 0.3
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.6
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 0.58
Rv3236c 3612665 p.Val151Ala missense_variant 0.69
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.38
embB 4246544 p.Thr11Pro missense_variant 0.25
embB 4246548 p.Pro12Gln missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 0.19
embB 4246556 p.Ala15Pro missense_variant 0.19
embB 4246563 p.Leu17Trp missense_variant 0.16
embB 4246567 c.54G>T synonymous_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0