TB-Profiler result

Run: ERR4812823
Summary

Run ID: ERR4812823

Sample name:

Date: 01-04-2023 12:21:31

Number of reads: 426482

Percentage reads mapped: 99.4

Strain: lineage4

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
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 761110 p.Asp435Val missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 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 6442 c.-860C>A upstream_gene_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760106 c.300G>A synonymous_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761758 p.Tyr651Cys missense_variant 0.29
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778404 p.Arg26Ile missense_variant 0.12
mmpR5 779195 p.Thr69Asn missense_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801106 p.Glu100* stop_gained 0.22
rplC 801111 p.Leu101Phe missense_variant 0.2
Rv1258c 1406581 p.His254Tyr missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474773 n.1116C>A non_coding_transcript_exon_variant 0.25
fabG1 1673367 c.-73G>A upstream_gene_variant 0.22
inhA 1674621 c.420C>A synonymous_variant 0.5
PPE35 2169070 p.Ala515Thr missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518811 p.Asp233Tyr missense_variant 1.0
folC 2747388 p.Gly71Ser missense_variant 0.33
folC 2747665 c.-67T>C upstream_gene_variant 0.33
pepQ 2860418 p.Val1Met missense_variant 0.12
ribD 2986995 p.Ala53Thr missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568751 c.-72C>T upstream_gene_variant 0.15
Rv3236c 3612591 p.Gly176Ser missense_variant 0.25
fbiA 3640514 c.-29A>G upstream_gene_variant 0.11
rpoA 3878416 p.Gly31Val missense_variant 0.15
embC 4240387 c.525C>A synonymous_variant 1.0
embA 4244963 p.Phe577Leu missense_variant 0.18
ethA 4326039 p.Arg479Trp missense_variant 0.11
ethA 4326914 p.Ala187Glu missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407964 p.Ala80Val missense_variant 0.2
gid 4408163 c.39dupA frameshift_variant 1.0