TB-Profiler result

Run: ERR1633799
Summary

Run ID: ERR1633799

Sample name:

Date: 18-08-2022 14:46:56

Number of reads: 1202516

Percentage reads mapped: 99.58

Strain: lineage4.3.2.1

Drug-resistance: Sensitive

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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 0.99
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
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
gyrB 5961 p.Thr241Asn missense_variant 0.12
gyrB 6549 p.Gly437Val missense_variant 0.13
gyrA 6565 c.-737G>A upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8771 c.1470C>T synonymous_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760572 c.766C>T synonymous_variant 0.13
rpoC 763340 c.-30T>C upstream_gene_variant 0.12
rpoC 763363 c.-7G>A upstream_gene_variant 0.15
rpoC 764279 p.Gln304Lys missense_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766960 c.3591C>A synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472334 n.489A>T non_coding_transcript_exon_variant 0.13
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rpsA 1834758 p.Gly406Glu missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155270 p.Ala281Gly missense_variant 0.18
katG 2155941 c.171G>T synonymous_variant 0.2
pncA 2289955 c.-714C>A upstream_gene_variant 0.15
kasA 2518222 c.108G>T synonymous_variant 1.0
folC 2746166 p.Ala478Val missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086666 c.-154G>A upstream_gene_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
panD 4044045 c.237G>T synonymous_variant 0.13
embC 4239842 c.-21C>A upstream_gene_variant 0.21
embC 4242425 p.Arg855Gly missense_variant 0.23
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246598 p.Val29Leu missense_variant 0.15
ethA 4326135 p.Pro447Ser missense_variant 0.14
gid 4408156 p.Leu16Arg missense_variant 1.0