TB-Profiler result

Run: ERR2229501
Summary

Run ID: ERR2229501

Sample name:

Date: 31-03-2023 17:15:28

Number of reads: 128092

Percentage reads mapped: 97.76

Strain: lineage4.9

Drug-resistance: HR-TB

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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
lineage4.9 Euro-American (H37Rv-like) T1 None 0.99
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
katG 2154461 c.1650delC frameshift_variant 0.4 isoniazid
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
rpoC 763202 c.-168A>G upstream_gene_variant 0.33
mmpL5 775736 c.2745C>G synonymous_variant 1.0
mmpL5 775741 c.2740C>T synonymous_variant 1.0
mmpL5 778380 p.Pro34Leu missense_variant 1.0
fbiC 1304416 p.Leu496Ile missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.75
ndh 2102035 c.1008C>G synonymous_variant 0.5
ndh 2102044 c.999G>T synonymous_variant 0.5
ndh 2102050 c.993T>G synonymous_variant 0.67
katG 2153970 p.Asp714Glu missense_variant 0.67
PPE35 2167745 p.Thr956Arg missense_variant 0.4
PPE35 2168330 c.2283G>T synonymous_variant 0.25
PPE35 2168580 p.Gly678Val missense_variant 0.67
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.4
PPE35 2169272 c.1341C>G synonymous_variant 0.4
PPE35 2169278 c.1335T>C synonymous_variant 0.4
PPE35 2169281 c.1332T>G synonymous_variant 0.4
PPE35 2169562 c.1051C>T synonymous_variant 0.25
PPE35 2169566 c.1047T>G synonymous_variant 0.33
PPE35 2169602 c.1011C>A synonymous_variant 0.31
PPE35 2169717 p.Asn299Ile missense_variant 0.31
PPE35 2169719 c.894C>T synonymous_variant 0.15
PPE35 2169732 p.Asn294Ser missense_variant 0.17
PPE35 2169746 p.Ile289Phe missense_variant 0.2
PPE35 2169749 c.864A>G synonymous_variant 0.22
PPE35 2169902 p.Leu237Phe missense_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.8
PPE35 2170053 p.Thr187Ser missense_variant 0.89
PPE35 2170764 c.-152C>A upstream_gene_variant 0.5
Rv1979c 2222086 p.Ala360Val missense_variant 0.5
kasA 2519140 c.1026G>C synonymous_variant 1.0
kasA 2519143 c.1029G>C synonymous_variant 1.0
kasA 2519153 p.Ile347Val missense_variant 1.0
kasA 2519167 c.1053T>C synonymous_variant 1.0
kasA 2519171 p.Leu353Val missense_variant 1.0
folC 2746410 p.Val397Met missense_variant 0.67
Rv2752c 3065511 c.681G>T synonymous_variant 0.29
clpC1 4039645 p.His354Asp missense_variant 0.5
clpC1 4040144 c.561G>C synonymous_variant 0.57
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.67
embB 4246548 p.Pro12Gln missense_variant 0.67
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
embB 4247512 c.999T>C synonymous_variant 1.0
embB 4247516 p.Asn335Asp missense_variant 1.0