TB-Profiler result

Run: ERR4819245
Summary

Run ID: ERR4819245

Sample name:

Date: 01-04-2023 16:00:16

Number of reads: 194136

Percentage reads mapped: 98.39

Strain: lineage2.2

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 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
pncA 2288934 p.Tyr103Cys missense_variant 0.29 pyrazinamide
ethA 4326981 p.Gln165* stop_gained 0.25 ethionamide
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
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764885 p.Arg506Trp missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775707 p.Met925Thr missense_variant 0.4
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 778805 p.Ser34Phe missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781824 p.Asp89Asn missense_variant 0.17
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
ndh 2102390 p.Pro218Leu missense_variant 0.33
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222660 p.Gly169Arg missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289335 c.-94T>A upstream_gene_variant 0.33
pncA 2289954 c.-713A>G upstream_gene_variant 0.4
kasA 2518065 c.-50A>G upstream_gene_variant 0.22
folC 2747520 c.79C>T synonymous_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449587 p.Gly362Ser missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475304 p.Ala433Val missense_variant 0.4
clpC1 4039645 p.His354Asp missense_variant 0.33
clpC1 4039654 p.Thr351Ser missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244144 c.912C>T synonymous_variant 0.29
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268048 c.789G>A synonymous_variant 0.18
aftB 4268310 p.Ala176Val missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0