TB-Profiler result

Run: SRR13837664
Summary

Run ID: SRR13837664

Sample name:

Date: 03-04-2023 09:15:26

Number of reads: 296338

Percentage reads mapped: 97.83

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 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 4326568 c.905delT frameshift_variant 1.0 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 7114 c.-188C>A upstream_gene_variant 0.15
gyrA 8820 p.Asp507His missense_variant 1.0
mshA 575967 p.Val207Asp missense_variant 1.0
rpoB 759961 p.Thr52Asn missense_variant 1.0
rpoB 761579 c.1773G>C synonymous_variant 0.2
rpoB 763050 p.Leu1082Met missense_variant 1.0
rpoC 764809 c.1440C>T synonymous_variant 0.14
rpoC 764815 c.1446A>G synonymous_variant 0.14
rpoC 764827 c.1458G>C synonymous_variant 0.14
rpoC 764858 c.1489T>C synonymous_variant 0.17
rpoC 764872 c.1503A>G synonymous_variant 0.14
rpoC 764932 c.1563C>A synonymous_variant 0.17
rpoC 766672 c.3303T>C synonymous_variant 0.2
mmpL5 775701 p.Pro927Gln missense_variant 1.0
mmpL5 778828 c.-348G>A upstream_gene_variant 1.0
rplC 801353 p.Val182Ala missense_variant 1.0
fbiC 1304512 p.Val528Ile missense_variant 1.0
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.33
rpsA 1834175 p.Arg212* stop_gained 1.0
Rv1979c 2222085 c.1080G>C synonymous_variant 1.0
folC 2746135 c.1464A>C stop_lost&splice_region_variant 1.0
ald 3087218 p.Met133Ile missense_variant 1.0
whiB7 3568679 p.Val1Leu missense_variant 1.0
clpC1 4040066 c.639G>T synonymous_variant 0.67
embC 4241259 c.1397_1398insT frameshift_variant 1.0
embA 4243358 c.126C>T synonymous_variant 1.0
embA 4243469 c.237C>T synonymous_variant 1.0
embB 4248157 c.1644A>G synonymous_variant 0.25
embB 4248172 c.1659G>C synonymous_variant 0.29
embB 4248436 c.1923C>T synonymous_variant 1.0
ubiA 4269557 p.Ala93Pro missense_variant 1.0