TB-Profiler result

Run: ERR11049399

Summary

Run ID: ERR11049399

Sample name:

Date: 01-04-2023 01:20:25

Number of reads: 3940273

Percentage reads mapped: 99.71

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
mshA 576113 p.Arg256Gly missense_variant 0.21
mshA 576446 p.Thr367Pro missense_variant 0.14
rpoC 764367 p.Gly333Ala missense_variant 0.19
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.16
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.28
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155664 p.Pro150Thr missense_variant 0.99
katG 2156196 c.-85C>T upstream_gene_variant 1.0
PPE35 2168963 c.1650A>G synonymous_variant 1.0
PPE35 2168975 c.1638C>T synonymous_variant 1.0
PPE35 2168981 c.1632A>G synonymous_variant 1.0
PPE35 2168985 p.Thr543Met missense_variant 1.0
PPE35 2168987 p.Thr542Ala missense_variant 1.0
PPE35 2168990 c.1623T>G synonymous_variant 1.0
PPE35 2169031 p.Asp528Asn missense_variant 0.15
PPE35 2170065 p.Ala183Gly missense_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.15
folC 2746340 p.Ala420Val missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.53
fbiD 3339746 p.Ala210Gly missense_variant 0.38
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.33
whiB7 3568431 c.249C>G synonymous_variant 0.25
rpoA 3878618 c.-111A>C upstream_gene_variant 0.67
rpoA 3878641 c.-134C>G upstream_gene_variant 0.73
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.31
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.26
embB 4248328 c.1815G>C synonymous_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408069 p.Trp45Ser missense_variant 0.99
gid 4408156 p.Leu16Arg missense_variant 1.0