TB-Profiler result

Run: ERR11050626
Summary

Run ID: ERR11050626

Sample name:

Date: 03-04-2023 13:57:22

Number of reads: 4074694

Percentage reads mapped: 99.78

Strain: lineage4.6.5

Drug-resistance: HR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.5 Euro-American T;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
gyrA 7581 p.Asp94Asn missense_variant 0.28 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
tlyA 1918647 p.Asn236Lys missense_variant 1.0 capreomycin
embB 4247451 p.Ala313Val missense_variant 1.0 ethambutol
gid 4408100 c.102delG frameshift_variant 1.0 streptomycin
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 576108 p.Ala254Gly missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777974 c.507C>T synonymous_variant 1.0
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
PPE35 2170065 p.Ala183Gly missense_variant 0.24
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746995 p.Val202Ile missense_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.16
fbiD 3339734 p.Ala206Gly missense_variant 0.6
Rv3083 3449426 p.Thr308Met missense_variant 1.0
Rv3083 3449594 p.Glu364Gly missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.99
rpoA 3878613 c.-106A>C upstream_gene_variant 0.6
rpoA 3878618 c.-111A>C upstream_gene_variant 0.4
rpoA 3878641 c.-134C>G upstream_gene_variant 0.43
embC 4240409 p.Pro183Ala missense_variant 0.28
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244256 p.Phe342Val missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.25
embB 4247028 p.Leu172Arg missense_variant 0.35
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3449424 c.922_1092del conservative_inframe_deletion 1.0