TB-Profiler result

Run: SRR16370329
Summary

Run ID: SRR16370329

Sample name:

Date: 03-04-2023 17:24:49

Number of reads: 2200795

Percentage reads mapped: 99.61

Strain: lineage4.5

Drug-resistance: HR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
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
lineage4.5 Euro-American H;T RD122 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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
katG 2155341 p.Met257Ile missense_variant 1.0 isoniazid
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
gyrB 6160 c.921C>T synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_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
rrl 1473758 n.101G>A non_coding_transcript_exon_variant 0.67
rrl 1475341 n.1684C>A non_coding_transcript_exon_variant 0.33
rrl 1475940 n.2283C>T non_coding_transcript_exon_variant 0.17
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.29
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.5
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.5
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.5
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.5
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.5
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.5
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.4
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.4
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.4
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.33
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.33
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.33
rrl 1476707 n.3050C>A non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290077 c.-836G>T upstream_gene_variant 1.0
ald 3087866 c.1047G>A synonymous_variant 1.0
ald 3087867 p.Leu350Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243300 p.Ala23Val missense_variant 1.0
embA 4244439 p.Gly403Arg missense_variant 1.0
whiB6 4338594 c.-73T>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0