Run ID: ERR760914
Sample name:
Date: 02-04-2023 05:17:43
Number of reads: 3998060
Percentage reads mapped: 83.85
Strain: lineage4.1.2.1.1
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 | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
lineage4.1.2.1.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 0.88 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289213 | p.Gln10Pro | missense_variant | 1.0 | pyrazinamide |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
gid | 4407872 | c.329_330delTG | frameshift_variant | 1.0 | streptomycin |
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 | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777793 | p.Ala230Thr | 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 | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472660 | n.815T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.15 |
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 |