TB-Profiler result

Run: SRR998807
Summary

Run ID: SRR998807

Sample name:

Date: 04-04-2023 23:37:09

Number of reads: 2729542

Percentage reads mapped: 98.34

Strain: lineage4.6.2.2;lineage4.1

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 0.92
lineage4.1 Euro-American T;X;H None 0.06
lineage4.6.2 Euro-American T;LAM RD726 0.94
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.94
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 761110 p.Asp435Val missense_variant 0.94 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288826 p.Val139Ala missense_variant 0.12 pyrazinamide
embB 4248003 p.Gln497Arg missense_variant 0.74 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 9304 p.Gly668Asp missense_variant 1.0
rpoB 762039 p.His745Tyr missense_variant 0.88
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 0.98
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
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.89
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.11
Rv3083 3448567 p.His22Asp missense_variant 0.94
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4240814 p.Gly318Ser missense_variant 0.94
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.25
aftB 4267272 p.Lys522Arg missense_variant 0.88
ethR 4326739 c.-810G>C upstream_gene_variant 0.93
ethA 4328004 c.-531C>T upstream_gene_variant 0.96
whiB6 4338595 c.-75delG upstream_gene_variant 1.0