TB-Profiler result

Run: ERR9786139
Summary

Run ID: ERR9786139

Sample name:

Date: 02-04-2023 12:09:41

Number of reads: 702797

Percentage reads mapped: 99.27

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
katG 2154742 p.Ser457Ile missense_variant 0.12 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 7053 p.Asp605Val missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491421 c.639A>G synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777292 p.Ala397Ser 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 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154992 p.Ser374Pro missense_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715014 p.Arg107Cys missense_variant 0.1
clpC1 4039729 p.Asp326Asn missense_variant 0.97
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246671 p.Thr53Ser missense_variant 0.1
aftB 4268052 p.Arg262Leu missense_variant 1.0
aftB 4268093 c.744C>T synonymous_variant 0.12
aftB 4268345 c.492C>G synonymous_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0