TB-Profiler result

Run: SRR10851653
Summary

Run ID: SRR10851653

Sample name:

Date: 02-04-2023 19:31:10

Number of reads: 867202

Percentage reads mapped: 69.64

Strain: lineage4.3.4;lineage4.1.2

Drug-resistance: Other

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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 0.54
lineage4.1 Euro-American T;X;H None 0.37
lineage4.1.2 Euro-American T;H None 0.45
lineage4.3.4 Euro-American (LAM) LAM RD174 0.59
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
thyA 3073852 p.His207Arg missense_variant 0.17 para-aminosalicylic_acid
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
fgd1 491591 p.Lys270Met missense_variant 0.47
rpoB 760115 c.309C>T synonymous_variant 0.45
rpoC 764263 c.894G>A synonymous_variant 0.47
rpoC 764995 c.1626C>G synonymous_variant 0.57
rpoC 765150 p.Gly594Glu missense_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776669 c.1812C>T synonymous_variant 0.14
mmpL5 777320 c.1161C>G synonymous_variant 0.54
mmpR5 778001 c.-989T>G upstream_gene_variant 0.35
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302736 c.-195A>G upstream_gene_variant 0.62
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833952 c.411C>G synonymous_variant 0.43
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169166 p.Pro483Ser missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.45
kasA 2518646 p.Ile178Phe missense_variant 0.15
eis 2714852 p.Ser161Arg missense_variant 0.52
thyA 3073868 p.Thr202Ala missense_variant 0.55
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568424 p.Pro86Thr missense_variant 0.29
Rv3236c 3611974 c.1143A>C synonymous_variant 0.47
Rv3236c 3612009 p.Ala370Thr missense_variant 0.44
clpC1 4038287 c.2418C>T synonymous_variant 0.53
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.52
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.64