TB-Profiler result

Run: ERR10748576
Summary

Run ID: ERR10748576

Sample name:

Date: 31-03-2023 10:59:22

Number of reads: 2549183

Percentage reads mapped: 99.35

Strain: lineage4.3.3

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 0.97
lineage4.3 Euro-American (LAM) mainly-LAM None 0.95
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.95
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 0.97 rifampicin
rpoC 764841 p.Ile491Thr missense_variant 0.93 rifampicin
katG 2155168 p.Ser315Thr missense_variant 0.98 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 0.96
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575909 p.Leu188Val missense_variant 0.93
mshA 576108 p.Ala254Gly missense_variant 0.15
rpoC 764995 c.1626C>G synonymous_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778346 c.-644G>A upstream_gene_variant 0.92
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 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289208 p.Asp12Tyr missense_variant 0.96
kasA 2518919 p.Gly269Ser missense_variant 0.93
folC 2747225 p.Arg125Gln missense_variant 0.91
pepQ 2860159 p.Ala87Gly missense_variant 0.25
thyA 3073868 p.Thr202Ala missense_variant 0.94
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.67
fbiD 3339746 p.Ala210Gly missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.2
clpC1 4038287 c.2418C>T synonymous_variant 0.97
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248324 p.Ala604Gly missense_variant 0.23
whiB6 4338367 p.Leu52Gln missense_variant 0.89
gid 4407986 p.Gly73Arg missense_variant 0.97
gid 4408156 p.Leu16Arg missense_variant 0.97