TB-Profiler result

Run: ERR4812510
Summary

Run ID: ERR4812510

Sample name:

Date: 01-04-2023 12:07:31

Number of reads: 1202363

Percentage reads mapped: 99.61

Strain: lineage4.3.3;lineage4.1.1

Drug-resistance: Sensitive

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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 0.85
lineage4.1 Euro-American T;X;H None 0.08
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.09
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.91
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
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 6052 p.Ile271Met missense_variant 0.2
gyrB 7221 p.Ser661Thr missense_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 0.86
gyrA 8694 c.1393C>T synonymous_variant 0.21
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.38
mshA 576111 p.Ala255Gly missense_variant 0.25
rpoB 759737 c.-70C>A upstream_gene_variant 0.1
rpoC 764995 c.1626C>G synonymous_variant 0.89
rpoC 765052 c.1683C>A synonymous_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778457 c.-533C>T upstream_gene_variant 0.95
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416699 p.Leu217Val missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833434 c.-108C>A upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.91
Rv2752c 3064763 p.Val477Ile missense_variant 0.1
thyA 3073868 p.Thr202Ala missense_variant 0.9
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 0.89
embC 4241922 p.Gly687Glu missense_variant 0.96
embC 4242182 p.Ala774Ser missense_variant 0.8
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.18
embB 4248830 p.Ser773Pro missense_variant 0.86
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407840 p.Glu121Asp missense_variant 0.81
gid 4408156 p.Leu16Arg missense_variant 0.85