TB-Profiler result

Run: SRR6855678
Summary

Run ID: SRR6855678

Sample name:

Date: 04-04-2023 17:42:03

Number of reads: 583743

Percentage reads mapped: 99.3

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 1.0
lineage4.1.2 Euro-American T;H None 0.99
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
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 1.0
mshA 575353 c.6A>G synonymous_variant 0.11
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764505 p.Asp379Gly missense_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776794 p.Asp563Asn missense_variant 0.12
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 2168048 c.2564delG frameshift_variant 0.14
PPE35 2170221 p.Pro131His missense_variant 0.15
PPE35 2170295 c.318A>G synonymous_variant 0.17
PPE35 2170692 c.-80T>C upstream_gene_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288895 c.338_346delGCACGCCAC disruptive_inframe_deletion 0.24
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518652 p.His180Asn missense_variant 0.18
eis 2715558 c.-226A>G upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612815 p.Ala101Val missense_variant 0.13
embC 4240633 p.Met257Ile missense_variant 0.11
embC 4241814 p.Ser651Leu missense_variant 0.12
embC 4242117 p.Ala752Val missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4246347 p.Thr1039Ala missense_variant 0.12
embB 4249657 c.3144C>T synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0