TB-Profiler result

Run: ERR4813009
Summary

Run ID: ERR4813009

Sample name:

Date: 01-04-2023 12:28:34

Number of reads: 993738

Percentage reads mapped: 99.43

Strain: lineage4.3.3

Drug-resistance: HR-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
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761333 c.1527G>T synonymous_variant 0.1
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766257 p.Arg963Leu missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407230 c.111C>A synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
pepQ 2860598 c.-180C>T upstream_gene_variant 0.1
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339236 p.Leu40Pro missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475093 p.Gly363Trp missense_variant 0.18
fbiB 3640920 c.-615A>T upstream_gene_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038302 c.2403C>T synonymous_variant 0.18
clpC1 4038433 p.Leu758Met missense_variant 0.11
embC 4240372 c.510A>T synonymous_variant 0.25
embC 4242182 p.Ala774Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407973 p.Val77Gly missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0