TB-Profiler result

Run: ERR4815553
Summary

Run ID: ERR4815553

Sample name:

Date: 01-04-2023 13:55:42

Number of reads: 1441897

Percentage reads mapped: 99.82

Strain: lineage4.8

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
lineage4.8 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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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 6432 p.Ala398Val missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 760979 c.1173G>A synonymous_variant 0.11
rpoC 766719 p.Asp1117Gly missense_variant 0.1
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 1471995 n.150C>G non_coding_transcript_exon_variant 0.11
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.12
rrl 1473431 n.-227G>A upstream_gene_variant 0.11
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474786 n.1129A>G non_coding_transcript_exon_variant 0.15
fabG1 1673927 p.Met163Thr missense_variant 0.12
inhA 1674359 p.Arg53Gln missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2222291 p.Ala292Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067310 c.636C>T synonymous_variant 0.11
fbiA 3640452 c.-91C>A upstream_gene_variant 0.14
fbiB 3641551 p.His6Arg missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268677 p.Arg54* stop_gained 0.11
ethA 4326362 p.Gly371Asp missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0