TB-Profiler result

Run: ERR4813354
Summary

Run ID: ERR4813354

Sample name:

Date: 01-04-2023 12:41:47

Number of reads: 3719667

Percentage reads mapped: 99.51

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 0.99
lineage4.1.2 Euro-American T;H None 0.98
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.98
mshA 575436 p.Pro30Gln missense_variant 0.33
mshA 575679 p.Asn111Ser missense_variant 0.95
ccsA 619774 c.-117C>T upstream_gene_variant 0.29
ccsA 619835 c.-56G>T upstream_gene_variant 0.22
rpoB 760115 c.309C>T synonymous_variant 0.99
rpoC 765150 p.Gly594Glu missense_variant 1.0
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
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.99
kasA 2518712 p.Gly200* stop_gained 0.15
eis 2715050 p.Gly95Ser missense_variant 0.17
thyX 3067400 c.546C>T synonymous_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877824 c.684G>A synonymous_variant 0.97
embC 4240555 p.Met231Ile missense_variant 0.25
embC 4242803 p.Val981Leu missense_variant 0.99
embA 4244597 c.1365G>T synonymous_variant 0.11
embA 4245786 p.Ala852Ser missense_variant 0.14
embB 4247014 c.501G>A synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0