TB-Profiler result

Run: ERR551068

Summary

Run ID: ERR551068

Sample name:

Date: 02-08-2023 08:15:55

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.1

Drug-resistance: HR-TB


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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
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
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
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 6880 c.-422G>A upstream_gene_variant 1.0
gyrA 7305 p.Thr2Ala missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7394 c.93T>C synonymous_variant 0.11
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575699 p.Glu118* stop_gained 0.11
mshA 576426 p.Val360Ala missense_variant 1.0
ccsA 620737 p.Ser283Thr missense_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766453 c.3088delC frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781421 c.-139C>A upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673310 c.-130T>C upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155427 p.Tyr229Asn missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726265 p.Lys25Gln missense_variant 0.23
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4267510 p.Asn443Asp missense_variant 0.11
aftB 4267513 p.Leu442Ile missense_variant 0.11
aftB 4267593 p.Ala415Val missense_variant 0.14
ubiA 4269292 p.Ala181Val missense_variant 0.14
ubiA 4269514 p.Val107Gly missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0