TB-Profiler result

Run: ERR4819624
Summary

Run ID: ERR4819624

Sample name:

Date: 01-04-2023 16:12:58

Number of reads: 817498

Percentage reads mapped: 99.47

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 0.99
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
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765947 c.2578T>C synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777623 c.858G>A synonymous_variant 0.14
mmpL5 777626 c.855C>T synonymous_variant 0.14
mmpL5 777637 p.Ile282Val missense_variant 0.12
mmpL5 777647 c.834C>G synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407215 c.126G>C synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833376 c.-166C>A upstream_gene_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167814 c.2799C>T synonymous_variant 0.18
PPE35 2169305 p.Asp436Glu missense_variant 0.11
PPE35 2170147 p.Ser156Ala missense_variant 0.2
PPE35 2170157 p.Ala152Ser missense_variant 0.2
PPE35 2170357 p.Ala86Thr missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2517937 c.-178G>T upstream_gene_variant 0.1
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746734 p.Ile289Val missense_variant 0.15
Rv2752c 3066231 c.-40G>T upstream_gene_variant 0.15
thyX 3067679 c.267C>T synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840338 c.1083C>T synonymous_variant 0.12
clpC1 4039161 p.His515Gly missense_variant 0.13
clpC1 4039169 p.Glu512Asp missense_variant 0.12
embC 4240712 p.Trp284Arg missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249293 p.Lys927Arg missense_variant 1.0
aftB 4269261 c.-425G>A upstream_gene_variant 0.22
ethA 4327896 c.-423C>T upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408453 c.-251G>A upstream_gene_variant 1.0