TB-Profiler result

Run: ERR4423643
Summary

Run ID: ERR4423643

Sample name:

Date: 01-04-2023 05:56:18

Number of reads: 361772

Percentage reads mapped: 99.51

Strain: lineage4.6.4

Drug-resistance: MDR-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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.4 Euro-American T;LAM 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
rpoB 761140 p.His445Leu missense_variant 1.0 rifampicin
ahpC 2726119 c.-74G>A upstream_gene_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 9121 p.Arg607His missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779526 c.-621G>A upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304343 c.1413T>A synonymous_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.17
fabG1 1673349 c.-91G>C upstream_gene_variant 0.17
fabG1 1673357 c.-83G>A upstream_gene_variant 0.25
fabG1 1673359 c.-81T>C upstream_gene_variant 0.25
fabG1 1673361 c.-79C>G upstream_gene_variant 0.25
fabG1 1673380 c.-60C>G upstream_gene_variant 0.25
rpsA 1834247 p.His236Asn missense_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170435 c.178C>A synonymous_variant 0.22
Rv1979c 2222486 p.Val227Phe missense_variant 0.33
Rv1979c 2222487 c.678T>C synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289274 c.-33G>A upstream_gene_variant 1.0
eis 2714393 p.Val314Leu missense_variant 1.0
ahpC 2726269 p.Val26Ala missense_variant 0.29
Rv2752c 3066071 p.Leu41Met missense_variant 0.25
ald 3087641 c.822T>C synonymous_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474792 c.786G>T synonymous_variant 0.29
fbiA 3640615 p.Leu25Met missense_variant 0.25
alr 3840553 p.Gly290Trp missense_variant 0.18
alr 3841400 c.21T>C synonymous_variant 0.2
rpoA 3877523 p.Thr329Ser missense_variant 0.4
clpC1 4040724 c.-20G>T upstream_gene_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245352 p.Lys707Thr missense_variant 1.0
embA 4246417 p.Arg1062Leu missense_variant 0.17
aftB 4267165 p.Trp558Arg missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0