TB-Profiler result

Run: ERR2515524
Summary

Run ID: ERR2515524

Sample name:

Date: 31-03-2023 20:58:45

Number of reads: 450664

Percentage reads mapped: 99.8

Strain: lineage4.3.2

Drug-resistance: HR-TB

Download CSV Download TXT Download PDF Download JSON
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
katG 2155367 p.Arg249Cys missense_variant 0.13 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 5891 p.Val218Leu missense_variant 0.12
gyrB 7220 p.Ser661Gly missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576585 p.Arg413Gln missense_variant 0.17
rpoB 760752 c.946C>T synonymous_variant 0.15
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778358 c.-632G>T upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406398 p.Met315Leu missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155247 p.Glu289Lys missense_variant 0.14
PPE35 2169291 p.Val441Ala missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067901 c.45C>T synonymous_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448506 c.3G>T start_lost 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640765 p.Pro75Thr missense_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243600 p.Ala123Asp missense_variant 0.1
embB 4245629 c.-885C>A upstream_gene_variant 0.11
aftB 4267593 p.Ala415Gly missense_variant 0.1
ethR 4327555 p.Thr3Ala missense_variant 0.11
ethA 4328007 c.-534G>A upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0