TB-Profiler result

Run: ERR6358722
Summary

Run ID: ERR6358722

Sample name:

Date: 02-04-2023 02:10:36

Number of reads: 5893773

Percentage reads mapped: 99.63

Strain: lineage4.6.1.1

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.1 Euro-American T2-Uganda RD724 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
ahpC 2726141 c.-52C>T upstream_gene_variant 1.0 isoniazid
embB 4247574 p.Asp354Ala missense_variant 0.99 ethambutol
gid 4408094 p.Gly37* stop_gained 0.99 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 7539 p.Thr80Ala 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 0.2
mmpL5 775639 p.Ile948Val missense_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
katG 2154217 p.Arg632His missense_variant 0.2
katG 2154796 p.Gln439Pro missense_variant 0.21
katG 2155082 p.Thr344Pro missense_variant 0.13
katG 2155819 p.Tyr98Cys missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289120 p.Tyr41Cys missense_variant 1.0
Rv2752c 3065664 c.527delT frameshift_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4040454 p.Ala84Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.27
ubiA 4269308 p.Phe176Leu missense_variant 1.0
ethA 4328329 c.-856C>G upstream_gene_variant 1.0
whiB6 4338473 c.49A>C synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0