TB-Profiler result

Run: ERR2653074

Summary

Run ID: ERR2653074

Sample name:

Date: 31-03-2023 22:29:05

Number of reads: 1258416

Percentage reads mapped: 99.25

Strain: lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 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 0.97 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247431 p.Met306Ile missense_variant 0.94 ethambutol
ethA 4327433 c.40dupA frameshift_variant 1.0 ethionamide
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
rpoB 762745 p.Gln980Arg missense_variant 0.31
rpoC 764995 c.1626C>G synonymous_variant 0.97
rpoC 765863 p.Ile832Val missense_variant 0.16
rpoC 766487 p.Pro1040Thr missense_variant 0.41
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
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1475530 n.1873C>G non_coding_transcript_exon_variant 0.14
inhA 1673595 c.-607A>C upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155095 p.Tyr339* stop_gained 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289120 p.Tyr41Cys missense_variant 1.0
folC 2747156 p.Ala148Val missense_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 0.98
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612784 c.333G>A synonymous_variant 0.97
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269319 p.Leu172Pro missense_variant 1.0
gid 4407917 p.Arg96Cys missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0