TB-Profiler result

Run: SRR13837824
Summary

Run ID: SRR13837824

Sample name:

Date: 03-04-2023 09:19:25

Number of reads: 147857

Percentage reads mapped: 98.62

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 0.91
gyrA 8903 c.1602T>C synonymous_variant 0.2
gyrA 8915 c.1614A>G synonymous_variant 0.18
gyrA 8939 c.1638T>C synonymous_variant 0.25
gyrA 8942 c.1641G>C synonymous_variant 0.25
gyrA 8945 c.1644G>C synonymous_variant 0.25
gyrA 8946 c.1645_1647delTTGinsCTC synonymous_variant 0.25
gyrA 8951 p.Lys550Asn missense_variant 0.25
gyrA 8966 c.1665C>G synonymous_variant 0.25
gyrA 8967 p.Ala556Arg missense_variant 0.25
gyrA 8987 c.1686C>G synonymous_variant 0.2
gyrA 8990 c.1689C>G synonymous_variant 0.2
gyrA 8996 c.1695T>C synonymous_variant 0.2
gyrA 8998 p.Leu566Trp missense_variant 0.22
gyrA 9023 c.1722A>C synonymous_variant 0.2
gyrA 9029 c.1728T>C synonymous_variant 0.22
gyrA 9032 c.1731T>C synonymous_variant 0.22
gyrA 9035 c.1734G>C synonymous_variant 0.22
mshA 575967 p.Val207Asp missense_variant 1.0
rpoB 759961 p.Thr52Asn missense_variant 1.0
rpoB 763050 p.Leu1082Met 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
rpsA 1834175 p.Arg212* stop_gained 0.92
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 1.0
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 1.0
ubiA 4269557 p.Ala93Pro missense_variant 1.0