Run ID: ERR4819894
Sample name:
Date: 01-04-2023 16:21:56
Number of reads: 1015695
Percentage reads mapped: 99.01
Strain: lineage4.3.4.1
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.1 | Euro-American (LAM) | LAM1;LAM2 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2154671 | c.1438_1440delGCG | conservative_inframe_deletion | 0.12 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5899 | c.660C>T | synonymous_variant | 0.11 |
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 | 491181 | c.399T>C | synonymous_variant | 0.1 |
rpoB | 760535 | c.729C>T | synonymous_variant | 0.11 |
rpoC | 764283 | p.Ser305Leu | missense_variant | 0.17 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 766068 | p.Glu900Gly | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776013 | p.Trp823Leu | missense_variant | 0.14 |
mmpL5 | 778161 | p.Ala107Val | missense_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406490 | p.Arg284His | missense_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102279 | p.Asn255Ile | missense_variant | 0.12 |
PPE35 | 2167824 | p.Gly930Val | missense_variant | 0.12 |
PPE35 | 2167888 | p.Phe909Leu | missense_variant | 0.13 |
Rv1979c | 2222854 | p.Ile104Thr | missense_variant | 1.0 |
Rv1979c | 2223029 | c.135delC | frameshift_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714555 | c.776_777delTC | frameshift_variant | 0.22 |
folC | 2746680 | p.Ala307Ser | missense_variant | 0.11 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449231 | p.Gly243Val | missense_variant | 0.18 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
rpoA | 3877761 | c.747G>A | synonymous_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4039991 | c.714G>A | synonymous_variant | 1.0 |
embC | 4241400 | c.1542_1544delCGA | disruptive_inframe_deletion | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethA | 4328312 | c.-839C>G | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |