TB-Profiler result

Run: ERR4817795
Summary

Run ID: ERR4817795

Sample name:

Date: 20-10-2023 08:29:27

Number of reads: 3035405

Percentage reads mapped: 93.14

Strain: lineage4.7

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
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin R rrs n.888G>A (0.81)
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
lineage4.7 Euro-American (mainly T) T1;T5 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.81 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 6415 c.-887G>A upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln 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 1472530 n.685G>A non_coding_transcript_exon_variant 0.81
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.81
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.87
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.87
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.83
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.87
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.47
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.39
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.45
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.88
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.88
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.88
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.53
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.56
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.54
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.41
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.81
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.82
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.83
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.83
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.12
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.8
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.81
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.81
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.71
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.3
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.45
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.38
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.35
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.33
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.33
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.31
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.31
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.29
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.29
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.29
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.36
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
alr 3840618 p.Asp268Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249732 c.3219C>G synonymous_variant 1.0
ubiA 4269933 c.-100C>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0