TB-Profiler result

Run: SRR14782775
Summary

Run ID: SRR14782775

Sample name:

Date: 03-04-2023 11:38:55

Number of reads: 3544968

Percentage reads mapped: 99.59

Strain: lineage4.3.4.1

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 0.98
lineage4.3.4 Euro-American (LAM) LAM RD174 0.98
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 0.98
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 9304 p.Gly668Asp missense_variant 1.0
rpoC 763783 c.414G>A synonymous_variant 0.99
rpoC 764367 p.Gly333Ala missense_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 0.97
rpoC 765325 c.1956C>T synonymous_variant 0.99
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
fabG1 1673553 p.Asp38Glu missense_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168147 c.2466A>G synonymous_variant 0.95
PPE35 2170065 p.Ala183Gly missense_variant 0.27
Rv1979c 2223123 c.42G>A synonymous_variant 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746540 c.1059G>A synonymous_variant 0.98
pepQ 2860159 p.Ala87Gly missense_variant 0.17
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.68
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.33
rpoA 3878641 c.-134C>G upstream_gene_variant 0.53
clpC1 4038287 c.2418C>T synonymous_variant 0.98
embC 4240409 p.Pro183Ala missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.29
embB 4246529 p.Ser6Arg missense_variant 0.25
embB 4246584 p.Arg24Pro missense_variant 0.36
whiB6 4338550 c.-29A>T upstream_gene_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0