TB-Profiler result

Run: ERR5165795
Summary

Run ID: ERR5165795

Sample name:

Date: 01-04-2023 22:29:23

Number of reads: 630350

Percentage reads mapped: 98.9

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491736 c.954C>A synonymous_variant 0.1
ccsA 620748 c.858T>G synonymous_variant 0.3
rpoB 759615 c.-192A>C upstream_gene_variant 0.29
rpoB 761495 p.Glu563Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777295 p.Gly396Ser missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406964 p.Ser126* stop_gained 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102757 p.Gly96Arg missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2746239 p.Pro454Thr missense_variant 0.13
folC 2746287 p.Asp438Asn missense_variant 0.15
folC 2746745 p.Val285Gly missense_variant 0.5
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyX 3067846 p.Ala34Thr missense_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475125 c.1119G>A synonymous_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
panD 4044034 c.247dupG frameshift_variant 0.12
embC 4240828 c.966G>A synonymous_variant 0.17
embC 4241061 p.Pro400Leu missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248697 c.2184A>G synonymous_variant 0.22
ubiA 4269663 p.Met57Ile missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0