TB-Profiler result

Run: ERR4822268
Summary

Run ID: ERR4822268

Sample name:

Date: 01-04-2023 17:43:54

Number of reads: 161425

Percentage reads mapped: 96.02

Strain: lineage4.8

Drug-resistance: Other

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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.16
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
tlyA 1918618 c.681dupC frameshift_variant 0.67 capreomycin
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 9581 c.2281delA frameshift_variant 0.15
rpoC 763402 c.33C>G synonymous_variant 0.33
rpoC 763411 c.42T>G synonymous_variant 0.29
rpoC 763414 c.45T>C synonymous_variant 0.29
rpoC 763771 p.Tyr134* stop_gained 0.25
rpoC 764239 c.870T>C synonymous_variant 0.4
rpoC 766876 c.3507C>T synonymous_variant 0.4
rpoC 766882 c.3513C>T synonymous_variant 0.4
rpoC 766894 c.3525T>C synonymous_variant 0.4
rpoC 766895 c.3526T>C synonymous_variant 0.4
rpoC 766900 c.3531T>C synonymous_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778579 c.326delG frameshift_variant 0.5
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833721 c.180A>G synonymous_variant 0.5
rpsA 1833724 c.183C>G synonymous_variant 0.5
rpsA 1833727 c.186G>C synonymous_variant 0.5
rpsA 1833742 c.201A>G synonymous_variant 0.5
rpsA 1833745 c.204G>C synonymous_variant 0.5
rpsA 1833748 c.207C>G synonymous_variant 0.5
rpsA 1834465 c.924T>C synonymous_variant 0.5
rpsA 1834468 c.927A>G synonymous_variant 0.5
rpsA 1834489 c.948T>C synonymous_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101907 p.Val379Ala missense_variant 1.0
ndh 2102780 p.Asn88Ser missense_variant 0.75
katG 2154015 c.2097G>A synonymous_variant 0.5
PPE35 2169615 p.Asn333Ser missense_variant 0.5
PPE35 2169937 p.Asn226Asp missense_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
gid 4407678 c.525G>C synonymous_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0