TB-Profiler result

Run: SRR15316341
Summary

Run ID: SRR15316341

Sample name:

Date: 03-04-2023 13:25:15

Number of reads: 7494257

Percentage reads mapped: 94.88

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 0.99
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 0.99 rifampicin
pncA 2289213 p.Gln10Pro missense_variant 0.98 pyrazinamide
ahpC 2726141 c.-52C>T upstream_gene_variant 0.98 isoniazid
embB 4247431 p.Met306Ile missense_variant 0.99 ethambutol
embB 4249583 p.Asp1024Asn missense_variant 0.4 ethambutol
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 7892 c.591G>A synonymous_variant 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoC 763966 c.597C>T synonymous_variant 1.0
rpoC 767123 p.Val1252Met missense_variant 0.98
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
katG 2154490 p.Ala541Val missense_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066004 p.Asp63Gly missense_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 0.98
clpC1 4038318 p.Pro796Leu missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269731 p.Ala35Thr missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407992 p.Gly71Arg missense_variant 1.0