TB-Profiler result

Run: ERR2513398

Summary

Run ID: ERR2513398

Sample name:

Date: 20-10-2023 10:16:35

Number of reads: 1500255

Percentage reads mapped: 96.03

Strain: lineage4.2.1

Drug-resistance: Sensitive


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
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
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
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.69
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.77
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.56
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.6
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.53
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.53
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.67
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.47
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.47
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.62
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.54
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.53
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.64
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.61
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.55
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.71
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.52
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.53
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155371 c.741C>T synonymous_variant 1.0
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2223293 c.-129A>G 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 1.0
alr 3841473 c.-53G>A upstream_gene_variant 0.24
rpoA 3878680 c.-173C>T upstream_gene_variant 1.0
embC 4239776 c.-87G>A upstream_gene_variant 0.31
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249594 c.3081G>A synonymous_variant 1.0
ethA 4328376 c.-903G>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0