TB-Profiler result

Run: SRR6982376
Summary

Run ID: SRR6982376

Sample name:

Date: 04-04-2023 18:35:38

Number of reads: 679129

Percentage reads mapped: 99.69

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 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
ethA 4326016 c.1457delC frameshift_variant 0.1 ethionamide
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
fgd1 491376 p.Lys198Asn missense_variant 0.13
fgd1 491386 p.Leu202Phe missense_variant 0.12
fgd1 491661 c.879C>A synonymous_variant 0.12
fgd1 491682 p.Tyr300* stop_gained 0.18
mshA 576584 c.1241delG frameshift_variant 0.11
mshA 576766 c.1419G>A synonymous_variant 0.11
ccsA 619909 p.Asn7Tyr missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673233 c.-207T>G upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167989 p.Thr875Ile missense_variant 0.12
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170215 p.Ile133Asn missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339284 p.Leu56Pro missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embC 4242057 p.Pro732Gln missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244013 p.Leu261Met missense_variant 0.12
ethA 4328061 c.-588C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0