TB-Profiler result

Run: ERR4814789

Summary

Run ID: ERR4814789

Sample name:

Date: 20-10-2023 07:38:56

Number of reads: 1749980

Percentage reads mapped: 97.13

Strain: lineage3

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
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
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
embR 1416816 p.Ala178Thr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.5
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.57
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.73
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.7
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.43
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.43
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.5
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.5
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.43
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.43
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.67
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.79
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.86
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.87
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.81
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.68
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.62
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.6
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.59
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.59
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.61
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.52
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.32
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.32
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.42
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.46
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.4
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.45
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.42
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.42
rrs 1473293 n.1449delA non_coding_transcript_exon_variant 0.25
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.3
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.3
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.31
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.43
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156013 c.99C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.98
pncA 2289047 c.195C>T synonymous_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
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640644 p.His34Gln missense_variant 1.0
alr 3841473 c.-53G>A upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269805 p.Pro10Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0