TB-Profiler result

Run: ERR2510863
Summary

Run ID: ERR2510863

Sample name:

Date: 31-03-2023 18:58:57

Number of reads: 1374612

Percentage reads mapped: 99.75

Strain: lineage4.9

Drug-resistance: MDR-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
lineage4.9 Euro-American (H37Rv-like) T1 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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288934 p.Tyr103Cys missense_variant 0.97 pyrazinamide
embB 4247429 p.Met306Val missense_variant 1.0 ethambutol
gid 4408069 p.Trp45* stop_gained 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 7679 c.378G>C synonymous_variant 0.11
rpoB 761008 p.Gln401Arg missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777052 p.Gly477Arg missense_variant 1.0
mmpR5 779038 p.Met17Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781856 c.297C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674850 c.649C>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519329 c.1217delG frameshift_variant 0.17
kasA 2519337 p.Asn408Ile missense_variant 0.12
Rv2752c 3064741 p.Gly484Asp missense_variant 0.12
Rv2752c 3064750 p.Arg481His missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0