TB-Profiler result

Run: ERR9901824
Summary

Run ID: ERR9901824

Sample name:

Date: 02-04-2023 13:33:11

Number of reads: 835802

Percentage reads mapped: 99.37

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;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
tlyA 1918517 c.582delC frameshift_variant 0.11 capreomycin
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 7323 p.Pro8Ala missense_variant 1.0
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
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 763302 c.3497delC frameshift_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766942 c.3573C>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776659 p.Asp608Asn missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674908 p.Thr236Met missense_variant 0.11
rpsA 1834732 p.Asp397Glu missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918470 c.531C>A synonymous_variant 0.12
PPE35 2168501 p.Phe704Leu missense_variant 1.0
PPE35 2170559 c.54G>A synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746682 c.893_916delAGGCGCACAACGCGGTGCTCGCCC disruptive_inframe_deletion 0.14
thyX 3067555 p.Ile131Phe missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4240064 p.Ala68Thr missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.12
embB 4246555 c.42G>C synonymous_variant 0.12
embB 4246556 p.Ala15Pro missense_variant 0.12
embB 4246976 p.Ala155Thr missense_variant 0.15
embB 4247121 p.Ser203Leu missense_variant 1.0
aftB 4268807 c.30G>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408062 c.141G>A synonymous_variant 1.0