TB-Profiler result

Run: ERR4812876
Summary

Run ID: ERR4812876

Sample name:

Date: 01-04-2023 12:23:50

Number of reads: 4691601

Percentage reads mapped: 99.74

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 7691 c.390C>G synonymous_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575750 p.Gly135Trp missense_variant 0.17
rpoB 761699 c.1893C>T synonymous_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
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
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2714871 c.462G>T synonymous_variant 0.14
folC 2746359 p.Val414Ile missense_variant 0.33
folC 2747784 c.-186C>T upstream_gene_variant 0.15
thyX 3067542 p.Ala135Val missense_variant 0.29
thyX 3067825 p.Arg41Trp missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339360 c.243C>A synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038224 c.2481G>A synonymous_variant 0.29
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242182 p.Ala774Ser missense_variant 0.98
embA 4243482 p.Ala84Ser missense_variant 0.29
embA 4245730 p.Asp833Gly missense_variant 0.1
embB 4246788 p.Pro92Leu missense_variant 0.4
embB 4247008 p.Lys165Asn missense_variant 0.15
embB 4247019 p.Gly169Asp missense_variant 0.17
aftB 4267874 c.963G>A synonymous_variant 0.12
ethR 4328038 p.Arg164Ser missense_variant 0.22
ethR 4328063 p.Ala172Asp missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407922 p.Leu94Arg missense_variant 0.95
gid 4408156 p.Leu16Arg missense_variant 1.0