TB-Profiler result

Run: ERR2652980
Summary

Run ID: ERR2652980

Sample name:

Date: 31-03-2023 22:25:51

Number of reads: 1062253

Percentage reads mapped: 99.37

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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 7922 p.Asn207Lys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303151 p.Gly74Ala missense_variant 0.2
fbiC 1303393 p.Trp155Arg missense_variant 1.0
fbiC 1304052 c.1122G>A synonymous_variant 0.12
Rv1258c 1407075 p.Val89Gly missense_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 0.99
PPE35 2170048 p.Leu189Val missense_variant 0.4
PPE35 2170053 p.Thr187Ser missense_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715545 c.-213C>T upstream_gene_variant 0.29
folC 2746590 p.Gly337Ser missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339565 p.Val150Leu missense_variant 0.12
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3878639 c.-132C>G upstream_gene_variant 0.12
embC 4240460 p.Val200Met missense_variant 0.14
embC 4242188 p.Ala776Thr missense_variant 0.12
embC 4242227 p.Gly789Ser missense_variant 0.12
embA 4242328 c.-905C>T upstream_gene_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242676 c.-557C>T upstream_gene_variant 0.12
embC 4242699 p.Val946Ala missense_variant 0.11
embA 4243482 p.Ala84Thr missense_variant 0.22
embB 4246563 p.Leu17Trp missense_variant 0.1
embB 4246567 c.54G>T synonymous_variant 0.11
aftB 4267585 p.Thr418Pro missense_variant 0.11
aftB 4267593 p.Ala415Val missense_variant 0.12
aftB 4268358 p.Gln160Arg missense_variant 0.1
whiB6 4338228 c.294G>A synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0