Run ID: ERR1035295
Sample name:
Date: 31-03-2023 10:10:08
Number of reads: 10939324
Percentage reads mapped: 99.53
Strain: lineage4.1.2.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 0.99 |
lineage4.1.2 | Euro-American | T;H | None | 0.99 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
inhA | 1674481 | p.Ser94Ala | missense_variant | 1.0 | isoniazid, ethionamide |
katG | 2155102 | p.Tyr337Cys | missense_variant | 0.14 | isoniazid |
embB | 4247574 | p.Asp354Ala | missense_variant | 0.99 | ethambutol |
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 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.99 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 764916 | p.Leu516Pro | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
rpsL | 781365 | c.-195T>C | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1305014 | p.Thr695Lys | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473752 | n.95G>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1473806 | n.149C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1473815 | n.158T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1473836 | n.179A>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1473876 | n.219G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1473877 | n.220G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1473898 | n.241C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1473923 | n.266C>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1473924 | n.267_268insT | non_coding_transcript_exon_variant | 0.27 |
rrl | 1473943 | n.286G>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1473944 | n.287G>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1473995 | n.338G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474028 | n.371T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474029 | n.372G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474034 | n.377G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474040 | n.383G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474083 | n.426C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474111 | n.454T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474140 | n.483C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474151 | n.494C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474181 | n.524C>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474266 | n.609T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474632 | n.975G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474639 | n.982G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474716 | n.1059A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474794 | n.1137C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474831 | n.1174A>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1475202 | n.1545G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475213 | n.1556C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475429 | n.1772G>A | non_coding_transcript_exon_variant | 0.1 |
rrl | 1475446 | n.1789G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476214 | n.2557G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476299 | n.2642C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476597 | n.2940G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476629 | n.2972C>A | non_coding_transcript_exon_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.24 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.18 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.98 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.38 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.19 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407977 | p.Gly76Cys | missense_variant | 0.99 |