TB-Profiler result

Run: SRR6785288
Summary

Run ID: SRR6785288

Sample name:

Date: 04-04-2023 15:42:24

Number of reads: 1038908

Percentage reads mapped: 99.79

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
gyrB 7067 p.Tyr610Asp missense_variant 0.18
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 8114 c.813C>T synonymous_variant 0.25
gyrA 8527 p.Arg409Gln missense_variant 1.0
gyrA 8903 c.1602T>C synonymous_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491257 p.Gly159Cys missense_variant 0.4
mshA 576108 p.Ala254Gly missense_variant 0.18
rpoC 762455 c.-915C>T upstream_gene_variant 0.17
rpoC 764543 p.Thr392Pro missense_variant 0.15
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
fbiC 1303095 c.165G>A synonymous_variant 1.0
Rv1258c 1406873 c.468C>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.3
fabG1 1673349 c.-91G>C upstream_gene_variant 0.3
fabG1 1673357 c.-83G>A upstream_gene_variant 0.2
fabG1 1673359 c.-81T>C upstream_gene_variant 0.2
fabG1 1673361 c.-79C>G upstream_gene_variant 0.2
fabG1 1673380 c.-60C>G upstream_gene_variant 0.33
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
PPE35 2168133 p.Asp827Ala missense_variant 0.4
PPE35 2170048 p.Leu189Val missense_variant 0.38
PPE35 2170053 p.Thr187Ser missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2746340 p.Ala420Val missense_variant 1.0
thyX 3067654 p.His98Asn missense_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449102 p.Asn200Thr missense_variant 0.43
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474507 c.501C>G synonymous_variant 1.0
fprA 3475268 p.Ala421Val missense_variant 0.57
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038968 c.1737G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244982 p.Leu584Val missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408174 p.Ala10Gly missense_variant 1.0