TB-Profiler result

Run: ERR2515569
Summary

Run ID: ERR2515569

Sample name:

Date: 31-03-2023 21:00:14

Number of reads: 648468

Percentage reads mapped: 99.72

Strain: lineage4.4.1.1.1;lineage4.1.2

Drug-resistance: HR-TB

Download CSV Download TXT Download PDF Download JSON
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 0.37
lineage4.4 Euro-American S;T None 0.63
lineage4.1.2 Euro-American T;H None 0.32
lineage4.4.1 Euro-American (S-type) S;T None 0.63
lineage4.4.1.1 Euro-American S;Orphans None 0.62
lineage4.4.1.1.1 Euro-American S;Orphans None 0.61
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
katG 2153946 c.2165delA frameshift_variant 0.1 isoniazid
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
rpoC 765150 p.Gly594Glu missense_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417140 p.Ala70Ser missense_variant 0.52
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673249 c.-191C>T upstream_gene_variant 0.35
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 0.68
PPE35 2168163 p.Pro817His missense_variant 0.12
PPE35 2169840 p.Gly258Asp missense_variant 0.6
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747022 p.Val193Ile missense_variant 0.52
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.62
Rv3083 3448894 p.Tyr131Asp missense_variant 0.37
Rv3083 3449642 p.Asn380Ser missense_variant 0.57
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 0.75
fbiA 3641164 p.Ile208Val missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.3
embB 4249756 c.3243C>T synonymous_variant 0.15
aftB 4268861 c.-25T>C upstream_gene_variant 0.3
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407604 p.Ala200Glu missense_variant 0.59