TB-Profiler result

Run: ERR8774132
Summary

Run ID: ERR8774132

Sample name:

Date: 02-04-2023 08:24:04

Number of reads: 981658

Percentage reads mapped: 99.58

Strain: lineage4.3.2.1

Drug-resistance: RR-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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
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 762745 p.Gln980Arg missense_variant 0.64
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776059 p.Val808Met missense_variant 0.22
mmpL5 777263 c.1218G>T synonymous_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rpsA 1834030 c.489C>A synonymous_variant 0.14
rpsA 1834514 p.Glu325* stop_gained 0.38
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167985 p.Met876Ile missense_variant 0.25
PPE35 2168228 c.2385C>A synonymous_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715163 p.Glu57Gly missense_variant 1.0
ahpC 2726293 p.Tyr34Cys missense_variant 1.0
thyA 3073686 c.786G>T synonymous_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449457 c.954C>A synonymous_variant 0.27
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474228 c.222C>A synonymous_variant 0.13
Rv3236c 3612629 p.Ala163Glu missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240915 p.Met351Ile missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245632 c.2403delA frameshift_variant 0.18
aftB 4267703 c.1134C>A synonymous_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0