TB-Profiler result

Run: SRR1173544
Summary

Run ID: SRR1173544

Sample name:

Date: 03-04-2023 03:27:10

Number of reads: 1466158

Percentage reads mapped: 94.08

Strain: lineage4.6.1.2

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
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.2 Euro-American T2 RD724 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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
embB 4247730 p.Gly406Ala missense_variant 1.0 ethambutol
gid 4408100 c.102delG frameshift_variant 1.0 streptomycin
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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9276 c.1975C>T synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.11
fgd1 491295 c.513C>A synonymous_variant 0.13
rpoC 764724 p.Phe452Cys missense_variant 1.0
rpoC 764810 p.Pro481Thr missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303391 p.Arg154His missense_variant 1.0
embR 1416410 p.Leu313Arg missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155142 p.Thr324Ala missense_variant 0.31
katG 2155541 p.Trp191Gly missense_variant 0.97
PPE35 2169320 p.Leu431Phe missense_variant 0.16
PPE35 2170262 c.351C>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288754 p.Val163Ala missense_variant 1.0
Rv2752c 3065920 p.Pro91Leu missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640407 c.-136G>A upstream_gene_variant 0.97
embC 4242295 p.Asp811Glu missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245055 p.Thr608Asn missense_variant 1.0
ubiA 4269731 p.Ala35Thr missense_variant 0.92
ethA 4327107 p.His123Tyr missense_variant 1.0
ethR 4328171 p.Val208Ala missense_variant 0.97
whiB6 4338445 c.76delC frameshift_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0