TB-Profiler result

Run: ERR4819734

Summary

Run ID: ERR4819734

Sample name:

Date: 20-10-2023 09:02:03

Number of reads: 1585792

Percentage reads mapped: 90.72

Strain: lineage3

Drug-resistance: RR-TB


Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin R rpoB p.His445Tyr (1.00)
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
lineage3 East-African-Indian CAS RD750 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 761139 p.His445Tyr missense_variant 1.0 rifampicin
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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile 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 1472150 n.305T>A non_coding_transcript_exon_variant 0.39
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.48
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.92
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.86
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.86
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 1472566 n.721G>A non_coding_transcript_exon_variant 0.87
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.88
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.88
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.9
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.89
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.89
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.86
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.68
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.68
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.74
rrs 1472673 n.828T>A non_coding_transcript_exon_variant 0.87
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.88
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.88
rrs 1472682 n.837_842delTTGGGAinsGGGAT non_coding_transcript_exon_variant 0.87
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.78
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.83
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.77
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.77
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.79
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.79
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.77
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.38
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.41
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.28
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086987 p.Gln56His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642877 p.Lys448Arg missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0