TB-Profiler result

Run: SRR13837938
Summary

Run ID: SRR13837938

Sample name:

Date: 03-04-2023 09:22:29

Number of reads: 1492932

Percentage reads mapped: 96.55

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 8820 p.Asp507His missense_variant 0.98
mshA 575967 p.Val207Asp missense_variant 1.0
rpoB 759961 p.Thr52Asn missense_variant 1.0
rpoB 763050 p.Leu1082Met missense_variant 0.91
rpoC 763967 p.Gly200Ser missense_variant 0.11
rpoC 765478 c.2109T>C synonymous_variant 0.12
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 0.97
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
thyA 3073925 c.547T>C synonymous_variant 0.16
thyA 3073926 c.546G>C synonymous_variant 0.17
thyA 3073929 c.543T>C synonymous_variant 0.17
thyA 3073953 c.519T>C synonymous_variant 0.15
thyA 3073989 c.483T>C synonymous_variant 0.12
thyA 3074001 c.471C>G synonymous_variant 0.13
thyA 3074004 c.468T>C synonymous_variant 0.13
thyA 3074010 c.462C>G synonymous_variant 0.13
thyA 3074031 c.441T>C synonymous_variant 0.14
thyA 3074037 c.435C>G synonymous_variant 0.15
ald 3087218 p.Met133Ile missense_variant 1.0
whiB7 3568679 p.Val1Leu missense_variant 1.0
clpC1 4040066 c.639G>T synonymous_variant 0.96
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 4248436 c.1923C>T synonymous_variant 0.96
ubiA 4269557 p.Ala93Pro missense_variant 1.0