TB-Profiler result

Run: SRR7516315
Summary

Run ID: SRR7516315

Sample name:

Date: 04-04-2023 19:22:35

Number of reads: 1291986

Percentage reads mapped: 99.64

Strain: lineage4.3.3;lineage4.2.2

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 0.54
lineage4.2 Euro-American H;T;LAM None 0.52
lineage4.2.2 Euro-American (Ural) T;LAM7-TUR None 0.51
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.48
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 5903 p.Val222Met missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 0.32
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576077 c.730C>T synonymous_variant 0.44
mshA 576108 p.Ala254Gly missense_variant 0.24
rpoC 764995 c.1626C>G synonymous_variant 0.55
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 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834836 p.Met432Thr missense_variant 0.58
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 0.52
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.49
folC 2746340 p.Ala420Val missense_variant 0.38
Rv2752c 3066280 c.-89C>T upstream_gene_variant 0.46
thyA 3073868 p.Thr202Ala missense_variant 0.5
thyA 3074587 c.-116C>G upstream_gene_variant 0.61
ald 3086742 c.-78A>C upstream_gene_variant 0.7
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612012 p.Leu369Val missense_variant 0.43
clpC1 4038287 c.2418C>T synonymous_variant 0.68
clpC1 4038968 c.1737G>A synonymous_variant 0.58
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244016 c.784T>C synonymous_variant 0.48
embB 4246584 p.Arg24Pro missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.57