TB-Profiler result

Run: ERR4819834
Summary

Run ID: ERR4819834

Sample name:

Date: 20-10-2023 09:03:34

Number of reads: 3127403

Percentage reads mapped: 98.37

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
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 1472108 n.263C>T non_coding_transcript_exon_variant 0.68
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.67
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.67
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.67
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.84
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.85
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.83
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.75
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.6
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.5
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.64
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.64
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.58
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.65
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.73
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.68
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.68
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.68
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.94
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.96
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.86
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.86
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.7
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086999 c.180C>G synonymous_variant 1.0
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embC 4241086 c.1224G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4327461 p.Leu5Phe missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0