TB-Profiler result

Run: ERR1213862
Summary

Run ID: ERR1213862

Sample name:

Date: 31-03-2023 12:41:22

Number of reads: 4760499

Percentage reads mapped: 99.4

Strain: lineage4

Drug-resistance: Other

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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
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
rrs 1472751 n.906A>G non_coding_transcript_exon_variant 1.0 streptomycin
pncA 2289046 p.Ser66Pro missense_variant 0.99 pyrazinamide
embB 4247730 p.Gly406Ala missense_variant 1.0 ethambutol
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 8147 p.Asn282Lys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575248 c.-100C>T upstream_gene_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304501 p.Ala524Gly missense_variant 1.0
fbiC 1305357 c.2427C>G synonymous_variant 1.0
Rv1258c 1406189 c.1152A>G synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168742 p.Gly624Asp missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.24
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.98
ahpC 2726286 p.Gly32Ser missense_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.33
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.14
embC 4242425 p.Arg855Gly missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4327376 p.Ala33Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0