Run ID: ERR3132168
Sample name:
Date: 01-04-2023 00:26:52
Number of reads: 541477
Percentage reads mapped: 99.66
Strain: lineage4.3.2
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Trp | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
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 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776173 | p.Asp770Asn | missense_variant | 0.14 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472969 | n.1124A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472970 | n.1125C>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472977 | n.1132G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472978 | n.1133T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473105 | n.1260G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473290 | n.1445C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1474618 | n.961T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476031 | n.2374C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476032 | n.2375C>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476033 | n.2376T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476034 | n.2377C>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476045 | n.2388G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476047 | n.2390G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476048 | n.2391G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476049 | n.2392C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476086 | n.2429G>A | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476089 | n.2432T>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476095 | n.2438C>G | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476115 | n.2458T>C | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476117 | n.2460G>C | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476214 | n.2557G>A | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476583 | n.2926G>A | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.11 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.11 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.12 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.19 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.19 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.19 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.31 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169994 | p.Leu207Val | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2715474 | c.-142T>C | upstream_gene_variant | 0.14 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448428 | c.-75delC | upstream_gene_variant | 0.17 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3841441 | c.-21C>A | upstream_gene_variant | 1.0 |
ddn | 3986943 | p.Gly34Arg | missense_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338600 | c.-79T>G | upstream_gene_variant | 1.0 |
whiB6 | 4338602 | c.-81A>T | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |