Run ID: ERR2679284
Sample name:
Date: 31-03-2023 23:01:10
Number of reads: 571511
Percentage reads mapped: 99.52
Strain: lineage4.1.3
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 |
lineage4.1.3 | Euro-American | T;X;H | None | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761110 | p.Asp435Val | missense_variant | 1.0 | rifampicin |
fabG1 | 1673432 | c.-8T>A | upstream_gene_variant | 1.0 | isoniazid |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
gid | 4407967 | p.Leu79Ser | missense_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 |
gyrA | 9557 | c.2256G>C | synonymous_variant | 0.94 |
mshA | 575926 | c.579A>G | synonymous_variant | 0.12 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781421 | c.-139C>A | upstream_gene_variant | 1.0 |
fbiC | 1304610 | c.1680C>T | synonymous_variant | 1.0 |
Rv1258c | 1407069 | c.271delC | frameshift_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474954 | n.1297A>G | non_coding_transcript_exon_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519055 | c.942delG | frameshift_variant | 0.12 |
thyX | 3067240 | p.Ala236Thr | missense_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878627 | c.-120T>G | upstream_gene_variant | 0.67 |
panD | 4043882 | p.Pro134Ser | missense_variant | 1.0 |
embC | 4240570 | c.708C>T | synonymous_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242714 | p.Asp951Val | missense_variant | 0.12 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embA | 4244184 | p.Ser318Arg | missense_variant | 0.12 |
embA | 4244520 | c.1292delC | frameshift_variant | 0.12 |
embA | 4244609 | c.1377G>T | synonymous_variant | 0.12 |
aftB | 4267945 | p.Tyr298Asn | missense_variant | 0.11 |
ethA | 4327067 | p.Leu136Arg | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |