TB-Profiler result

Run: ERR2179776
Summary

Run ID: ERR2179776

Sample name:

Date: 27-03-2023 08:25:32

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 0.98
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
mmpR5 779181 c.198dupG frameshift_variant 0.99 clofazimine, bedaquiline
rrs 1472359 n.514A>C non_coding_transcript_exon_variant 1.0 streptomycin
katG 2156110 p.Val1Ala missense_variant 0.98 isoniazid
ahpC 2726141 c.-52C>T upstream_gene_variant 0.99 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
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
ccsA 620029 c.139C>T synonymous_variant 0.97
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
rrs 1472718 n.873C>T non_coding_transcript_exon_variant 0.12
rrl 1475641 n.1984G>A non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156507 c.-396T>G upstream_gene_variant 0.96
PPE35 2170568 p.Ile15Met missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714211 c.1122G>A synonymous_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 0.99
clpC1 4038318 p.Pro796Leu missense_variant 0.96
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244146 p.Asp305Gly missense_variant 0.98
ethA 4326009 p.Val489Phe missense_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0