TB-Profiler result

Run: ERR2513875
Summary

Run ID: ERR2513875

Sample name:

Date: 31-03-2023 19:57:47

Number of reads: 727206

Percentage reads mapped: 99.69

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
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 8000 c.699G>C synonymous_variant 0.11
rpoB 759620 c.-187A>C upstream_gene_variant 0.35
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
inhA 1674672 c.471C>G synonymous_variant 0.17
inhA 1674703 c.502T>C synonymous_variant 0.12
inhA 1674708 c.507G>A synonymous_variant 0.11
inhA 1674738 c.537C>G synonymous_variant 0.11
rpsA 1834986 c.1445G>T stop_lost&splice_region_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.14
PPE35 2169910 p.Asn235Tyr missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518526 c.416delC frameshift_variant 0.12
thyX 3067931 c.15G>A synonymous_variant 0.11
thyA 3074645 c.-174T>G upstream_gene_variant 0.4
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244893 p.Gly554Asp missense_variant 0.25
aftB 4268502 c.304_334delACCGGCCGGTTGTACGCACCCAGCCTGCGGG frameshift_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0