TB-Profiler result

Run: ERR11465162
Summary

Run ID: ERR11465162

Sample name:

Date: 06-01-2024 14:54:36

Number of reads: 7221609

Percentage reads mapped: 99.58

Strain: lineage4.4.1.1;lineage4.1

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 0.61
lineage4.4 Euro-American S;T None 0.37
lineage4.4.1 Euro-American (S-type) S;T None 0.37
lineage4.4.1.1 Euro-American S;Orphans None 0.35
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 9138 p.Gln613Glu missense_variant 0.35
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.22
rpoC 765150 p.Gly594Glu missense_variant 0.68
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777310 p.Gly391Ser missense_variant 0.76
mmpL5 777416 c.1065G>T synonymous_variant 0.27
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673363 c.-839G>A upstream_gene_variant 0.37
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 0.35
PPE35 2168479 p.Thr712Pro missense_variant 0.32
PPE35 2169840 p.Gly258Asp missense_variant 0.48
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066175 p.Pro6Arg missense_variant 0.37
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.41
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474774 c.768G>C synonymous_variant 0.65
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.89
whiB7 3568779 c.-100T>C upstream_gene_variant 0.4
Rv3236c 3612665 p.Val151Ala missense_variant 0.35
alr 3841505 c.-85C>T upstream_gene_variant 0.55
embA 4242643 c.-590C>T upstream_gene_variant 0.99
embC 4242803 p.Val981Leu missense_variant 0.7
embB 4249408 c.2895G>A synonymous_variant 0.7
whiB6 4338595 c.-75delG upstream_gene_variant 1.0