TB-Profiler result

Run: ERR8774149
Summary

Run ID: ERR8774149

Sample name:

Date: 02-04-2023 08:24:20

Number of reads: 726710

Percentage reads mapped: 99.63

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 761139 p.His445Asp missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
gyrB 5566 p.Phe109Leu missense_variant 0.22
gyrB 6136 c.897G>A synonymous_variant 1.0
gyrB 7052 p.Asp605Tyr missense_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491355 c.573C>A synonymous_variant 0.2
rpoB 759957 p.Gln51Lys missense_variant 0.17
rpoB 762107 p.Ile767Met missense_variant 0.1
rpoB 762907 p.Lys1034Arg missense_variant 0.14
rplC 800744 c.-65G>A upstream_gene_variant 0.12
Rv1258c 1407418 c.-78T>C upstream_gene_variant 0.11
atpE 1461072 p.Leu10Val missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833584 p.Asp15Tyr missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168913 p.Pro567Leu missense_variant 0.18
PPE35 2170449 p.Gly55Val missense_variant 0.14
pncA 2290170 c.-929T>C upstream_gene_variant 0.13
ahpC 2726520 p.Met110Val missense_variant 0.11
Rv2752c 3065058 c.1134C>T synonymous_variant 1.0
Rv2752c 3065528 c.664C>T synonymous_variant 1.0
thyA 3073948 p.Pro175Gln missense_variant 0.12
thyA 3074049 p.Met141Ile missense_variant 0.14
thyA 3074095 c.376delC frameshift_variant 0.17
Rv3083 3449352 p.Met283Ile missense_variant 0.18
fprA 3474282 p.Glu92Asp missense_variant 0.14
fbiA 3641157 p.Asp205Glu missense_variant 0.12
rpoA 3878424 c.84G>A synonymous_variant 0.14
embB 4249715 p.Asp1068Tyr missense_variant 0.13
ethR 4327144 c.-405C>A upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0