TB-Profiler result

Run: ERR9117765
Summary

Run ID: ERR9117765

Sample name:

Date: 02-04-2023 09:30:51

Number of reads: 1352952

Percentage reads mapped: 36.97

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 None 0.99
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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, 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
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 619831 c.-60T>G upstream_gene_variant 0.36
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473792 n.135C>G non_coding_transcript_exon_variant 0.18
rrl 1476321 n.2664A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918034 p.Val32Gly missense_variant 0.4
tlyA 1918066 p.Ala43Pro missense_variant 0.18
PPE35 2169879 p.Phe245Cys missense_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.2
Rv1979c 2223284 c.-120C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290183 c.-942T>C upstream_gene_variant 0.12
ahpC 2726341 p.Val50Gly missense_variant 0.12
folC 2746745 p.Val285Gly missense_variant 0.32
Rv2752c 3065541 c.651A>G synonymous_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642643 p.His370Pro missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268018 c.819G>T synonymous_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0