Run ID: ERR1274708
Sample name:
Date: 31-03-2023 13:30:46
Number of reads: 617514
Percentage reads mapped: 99.55
Strain: lineage4.1.1
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
inhA | 1674048 | c.-154G>A | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
kasA | 2519274 | p.Gly387Asp | missense_variant | 0.11 | 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 |
ccsA | 620784 | c.894C>A | synonymous_variant | 0.13 |
rpoB | 760493 | c.687C>A | synonymous_variant | 1.0 |
rpoB | 761147 | c.1341C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpoC | 765719 | p.Glu784Gln | missense_variant | 1.0 |
rpoC | 766070 | c.2701C>T | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406960 | p.Met127Ile | missense_variant | 0.14 |
atpE | 1460923 | c.-122A>G | upstream_gene_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472133 | n.289_290delCC | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475293 | n.1636T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476269 | n.2612C>A | non_coding_transcript_exon_variant | 0.15 |
rpsA | 1834623 | p.Ser361* | stop_gained | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154987 | c.1125G>A | synonymous_variant | 0.11 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.2 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.17 |
Rv2752c | 3065086 | p.Arg369Lys | missense_variant | 0.19 |
thyX | 3067348 | p.Ala200Thr | missense_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612516 | p.Arg201Ser | missense_variant | 0.12 |
fbiA | 3641447 | p.Thr302Met | missense_variant | 1.0 |
rpoA | 3877553 | p.Glu319Lys | missense_variant | 1.0 |
rpoA | 3878667 | c.-160T>C | upstream_gene_variant | 0.5 |
clpC1 | 4038355 | p.Gln784* | stop_gained | 0.12 |
clpC1 | 4038385 | p.Arg774Trp | missense_variant | 0.1 |
embC | 4240648 | c.786C>T | synonymous_variant | 0.21 |
embC | 4240897 | c.1035C>G | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.98 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
aftB | 4267693 | c.1143delG | frameshift_variant | 0.12 |
ethA | 4327603 | c.-130G>T | upstream_gene_variant | 0.1 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |