TB-Profiler result

Run: SRR10809007
Summary

Run ID: SRR10809007

Sample name:

Date: 02-04-2023 19:19:22

Number of reads: 864732

Percentage reads mapped: 99.54

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 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 5879 c.643dupC frameshift_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.36
mshA 576111 p.Ala255Gly missense_variant 0.22
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoC 767227 c.3858G>A synonymous_variant 0.17
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
rrl 1473411 n.-247_-246insT upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.21
rpsA 1833442 c.-100G>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168981 c.1632A>G synonymous_variant 1.0
PPE35 2168985 p.Thr543Met missense_variant 1.0
PPE35 2168987 p.Thr542Ala missense_variant 1.0
PPE35 2168990 c.1623T>G synonymous_variant 1.0
PPE35 2169041 c.1572G>A synonymous_variant 0.5
PPE35 2169053 c.1560T>C synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.49
PPE35 2170053 p.Thr187Ser missense_variant 0.47
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073697 p.Ala259Thr missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244152 p.Tyr307Ser missense_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.36
embB 4246548 p.Pro12Gln missense_variant 0.4
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
embB 4246563 p.Leu17Trp missense_variant 0.4
embB 4246567 c.54G>T synonymous_variant 0.4
embB 4246584 p.Arg24Pro missense_variant 0.5
ubiA 4269951 c.-118G>A upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0