TB-Profiler result

Run: ERR3087504

Summary

Run ID: ERR3087504

Sample name:

Date: 01-04-2023 00:16:32

Number of reads: 1223719

Percentage reads mapped: 99.29

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576649 c.1302C>T synonymous_variant 0.13
rpoB 760115 c.309C>T synonymous_variant 0.98
rpoB 760422 p.Leu206Ile missense_variant 0.12
rpoC 764021 c.652C>A synonymous_variant 0.13
rpoC 765150 p.Gly594Glu missense_variant 1.0
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
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170188 p.Glu142Gly missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2747595 p.Asn2Asp missense_variant 0.1
Rv2752c 3064758 c.1434G>T synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641727 p.Glu65* stop_gained 0.14
panD 4044168 c.114G>T synonymous_variant 0.13
embC 4240648 c.786C>T synonymous_variant 0.17
embC 4242220 c.2358A>C synonymous_variant 0.2
embC 4242351 p.Pro830Gln missense_variant 0.12
embC 4242421 c.2559_2560insG frameshift_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244273 c.1041G>T synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0