TB-Profiler result

Run: ERR11068551
Summary

Run ID: ERR11068551

Sample name:

Date: 13-04-2023 18:08:07

Number of reads: 3638506

Percentage reads mapped: 99.39

Strain: lineage4.3

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 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
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
mshA 576116 p.Ala257Pro missense_variant 0.5
mshA 576119 p.Ala258Pro missense_variant 0.75
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779322 p.Met111Ile missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471786 n.-60T>G upstream_gene_variant 0.23
rpsA 1834299 p.Gln253Arg missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918066 p.Ala43Pro missense_variant 0.2
tlyA 1918302 c.363G>C synonymous_variant 0.12
tlyA 1918501 p.Gly188Arg missense_variant 1.0
ndh 2102367 p.Ala226Thr missense_variant 0.11
PPE35 2168848 p.Val589Leu missense_variant 0.99
PPE35 2170464 p.Ala50Val missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715068 p.Pro89Ser missense_variant 0.18
folC 2746601 p.Val333Asp missense_variant 0.17
pepQ 2859968 p.Asp151Asn missense_variant 0.12
thyX 3068055 c.-110A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339673 p.Arg186Cys missense_variant 0.33
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474914 p.Ala303Val missense_variant 0.12
Rv3236c 3612589 c.528C>T synonymous_variant 0.11
fbiB 3641223 c.-312C>G upstream_gene_variant 0.12
fbiA 3641279 p.Ile246Thr missense_variant 0.17
fbiB 3641301 c.-234C>G upstream_gene_variant 0.12
fbiB 3642218 c.684A>G synonymous_variant 0.17
fbiB 3642225 p.Gln231* stop_gained 0.17
rpoA 3878641 c.-134C>G upstream_gene_variant 0.23
clpC1 4038163 p.Arg848Trp missense_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040257 p.Ala150Thr missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244261 c.1029G>A synonymous_variant 0.11
embA 4245691 p.Gly820Ala missense_variant 0.17
embB 4246661 p.Val50Met missense_variant 0.11
aftB 4268301 p.Ala179Asp missense_variant 0.11
aftB 4268457 p.Ala127Val missense_variant 1.0
aftB 4269753 c.-917G>A upstream_gene_variant 0.11
ethA 4328453 c.-980T>C upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408267 c.-65T>G upstream_gene_variant 1.0