TB-Profiler result

Run: ERR4821771
Summary

Run ID: ERR4821771

Sample name:

Date: 01-04-2023 17:26:33

Number of reads: 2301783

Percentage reads mapped: 99.71

Strain: lineage4.9;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 0.33
lineage4.9 Euro-American (H37Rv-like) T1 None 0.68
lineage4.1.2 Euro-American T;H None 0.32
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.36
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 5713 c.474C>G synonymous_variant 0.39
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.42
gyrA 9304 p.Gly668Asp missense_variant 0.39
fgd1 491591 p.Lys270Met missense_variant 0.39
mshA 575679 p.Asn111Ser missense_variant 0.26
mshA 576751 p.Lys468Asn missense_variant 0.22
rpoB 760115 c.309C>T synonymous_variant 0.32
rpoC 765150 p.Gly594Glu missense_variant 0.36
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
PPE35 2167792 p.Ser941Ala missense_variant 0.18
PPE35 2170201 p.Ala138Thr missense_variant 0.51
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.3
ahpC 2726338 p.Val49Gly missense_variant 0.22
ribD 2986892 c.54C>T synonymous_variant 0.31
ald 3086788 c.-32T>C upstream_gene_variant 0.34
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.21
embA 4242643 c.-590C>T upstream_gene_variant 0.27
embC 4242803 p.Val981Leu missense_variant 0.31
embA 4244102 c.870A>G synonymous_variant 0.74
whiB6 4338595 c.-75delG upstream_gene_variant 1.0