TB-Profiler result

Run: ERR551067

Summary

Run ID: ERR551067

Sample name:

Date: 02-08-2023 08:14:27

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
katG 2155788 p.His108Gln missense_variant 0.11 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576426 p.Val360Ala missense_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777938 c.543T>C synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781421 c.-139C>A upstream_gene_variant 1.0
fbiC 1304666 c.1742_1745delTCGG frameshift_variant 0.12
atpE 1460872 c.-173G>T upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673310 c.-130T>C upstream_gene_variant 1.0
inhA 1674093 c.-109C>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518770 p.Arg219His missense_variant 0.1
folC 2746934 p.Arg222Gln missense_variant 0.12
ribD 2987441 c.603A>G synonymous_variant 0.13
thyX 3068097 c.-152C>G upstream_gene_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339249 c.132C>T synonymous_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612365 p.Leu251Arg missense_variant 0.13
fbiA 3641174 p.Leu211Pro missense_variant 0.11
fbiB 3641752 p.Leu73Ser missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4268131 p.Val236Ile missense_variant 0.1
aftB 4268223 p.Arg205Leu missense_variant 0.11
aftB 4268580 p.Leu86Pro missense_variant 0.14
aftB 4269369 c.-533G>T upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0