Run ID: SRR5314271
Sample name:
Date: 04-04-2023 10:03:42
Number of reads: 2846371
Percentage reads mapped: 99.48
Strain: lineage4.2.2.2
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 |
lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
lineage4.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 1.0 |
lineage4.2.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761095 | p.Leu430Pro | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embA | 4243217 | c.-16C>T | upstream_gene_variant | 0.27 | ethambutol |
embB | 4248003 | p.Gln497Arg | missense_variant | 0.72 | 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 | 7844 | c.543C>A | synonymous_variant | 1.0 |
gyrA | 8688 | p.Ala463Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491295 | c.513C>G | synonymous_variant | 1.0 |
mshA | 576077 | c.730C>T | synonymous_variant | 1.0 |
ccsA | 619903 | p.His5Asn | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3066280 | c.-89C>T | upstream_gene_variant | 1.0 |
ald | 3086742 | c.-78A>C | 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 |
Rv3236c | 3612111 | p.Phe336Leu | missense_variant | 1.0 |
rpoA | 3878567 | c.-60C>G | upstream_gene_variant | 0.25 |
rpoA | 3878578 | c.-71C>A | upstream_gene_variant | 0.29 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246549 | c.36A>C | synonymous_variant | 0.82 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |