TB-Profiler result

Run: ERR2510251

Summary

Run ID: ERR2510251

Sample name:

Date: 31-03-2023 18:38:05

Number of reads: 756563

Percentage reads mapped: 99.45

Strain: lineage4.2.1

Drug-resistance: MDR-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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288933 p.Tyr103* stop_gained 1.0 pyrazinamide
embB 4247730 p.Gly406Ala missense_variant 1.0 ethambutol
gid 4407851 c.351delG frameshift_variant 1.0 streptomycin
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
mshA 576123 p.Leu259Arg missense_variant 0.15
rpoB 761032 p.Gln409Arg missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304826 c.1900delT frameshift_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168746 p.Gly623Ser missense_variant 1.0
PPE35 2169013 p.Val534Leu missense_variant 0.3
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2223284 c.-120C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289558 c.-317C>T upstream_gene_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.96
Rv3236c 3612746 c.370delG frameshift_variant 1.0
fbiB 3641826 p.Arg98* stop_gained 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267823 c.1014G>C synonymous_variant 1.0
aftB 4268435 p.Phe134Leu missense_variant 0.15
aftB 4268600 c.237G>T synonymous_variant 0.33
ubiA 4269719 p.Ala39Ser missense_variant 0.96
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408149 c.54T>C synonymous_variant 1.0