TB-Profiler result

Run: ERR6866888

Summary

Run ID: ERR6866888

Sample name:

Date: 02-04-2023 03:40:48

Number of reads: 1798310

Percentage reads mapped: 99.6

Strain: lineage4.3.3;lineage4.3.2

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
lineage4.3.2 Euro-American (LAM) LAM3 None 0.55
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.39
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 0.98
gyrA 8040 p.Gly247Ser missense_variant 0.49
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778457 c.-533C>T upstream_gene_variant 0.47
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801151 p.Thr115Ala missense_variant 0.56
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.79
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 0.35
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4241922 p.Gly687Glu missense_variant 0.34
embC 4242182 p.Ala774Ser missense_variant 0.38
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248830 p.Ser773Pro missense_variant 0.38
ethA 4326207 p.Gly423Arg missense_variant 0.61
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407840 p.Glu121Asp missense_variant 0.48
gid 4408156 p.Leu16Arg missense_variant 1.0