Run ID: SRR5153594
Sample name:
Date: 04-04-2023 09:21:07
Number of reads: 1268208
Percentage reads mapped: 99.33
Strain: lineage4.3.3
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpoC | 764363 | p.Gly332Arg | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
fabG1 | 1673423 | c.-17G>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
eis | 2715342 | c.-10G>A | upstream_gene_variant | 1.0 | kanamycin |
embB | 4247431 | p.Met306Ile | missense_variant | 0.97 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 761608 | c.1807delG | frameshift_variant | 0.11 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 766659 | p.Arg1097Gln | missense_variant | 0.12 |
rpoC | 766999 | c.3630C>A | synonymous_variant | 0.2 |
mmpL5 | 775639 | p.Ile948Val | 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 | 1471688 | n.-158G>T | upstream_gene_variant | 0.11 |
rpsA | 1834836 | p.Met432Thr | missense_variant | 1.0 |
rpsA | 1834913 | p.Lys458* | stop_gained | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168863 | c.1750C>T | synonymous_variant | 1.0 |
Rv1979c | 2222531 | p.Glu212* | stop_gained | 0.13 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
folC | 2747568 | p.Ser11Thr | missense_variant | 0.14 |
ribD | 2986827 | c.-12G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3067135 | c.-944C>T | upstream_gene_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473956 | c.-51C>G | upstream_gene_variant | 0.12 |
fprA | 3473998 | c.-9G>A | upstream_gene_variant | 1.0 |
fprA | 3473998 | c.-10_-9insA | upstream_gene_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243217 | c.-16C>A | upstream_gene_variant | 1.0 |
embB | 4248852 | c.2342delG | frameshift_variant | 0.18 |
aftB | 4269300 | c.-464G>T | upstream_gene_variant | 0.12 |
aftB | 4269615 | c.-779C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338250 | p.Ala91Val | missense_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407720 | c.483C>G | synonymous_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |