Run ID: ERR3994113
Sample name:
Date: 01-04-2023 03:42:52
Number of reads: 3156280
Percentage reads mapped: 99.98
Strain: lineage4.8
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoC | 764798 | p.Glu477Lys | missense_variant | 0.11 |
rpoC | 764908 | c.1539G>A | synonymous_variant | 0.11 |
rpoC | 766346 | p.Glu993Lys | missense_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406947 | p.Ala132Thr | missense_variant | 0.2 |
Rv1258c | 1407248 | c.93G>A | synonymous_variant | 0.14 |
embR | 1417140 | p.Ala70Thr | missense_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 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.1 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2170559 | c.54G>C | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3066375 | c.-184G>A | upstream_gene_variant | 0.17 |
Rv2752c | 3067107 | c.-916C>T | upstream_gene_variant | 0.11 |
fbiD | 3339286 | p.Arg57Cys | missense_variant | 0.14 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
embC | 4240304 | p.Leu148Phe | missense_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244676 | p.Ser482Ala | missense_variant | 0.15 |
embA | 4244873 | c.1641C>G | synonymous_variant | 0.13 |
embB | 4245605 | c.-909G>A | upstream_gene_variant | 0.2 |
embA | 4246072 | p.Asn947Ile | missense_variant | 0.1 |
embB | 4246862 | p.Val117Ile | missense_variant | 0.11 |
embB | 4249141 | c.2628G>A | synonymous_variant | 0.11 |
embB | 4249175 | p.Val888Met | 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 |