Run ID: SRR6855833
Sample name:
Date: 04-04-2023 17:47:16
Number of reads: 881202
Percentage reads mapped: 99.34
Strain: lineage4.1.2.1
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 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2154882 | c.1229delA | frameshift_variant | 0.2 | isoniazid |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 0.21 | isoniazid |
ahpC | 2726145 | c.-48G>A | upstream_gene_variant | 0.26 | 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 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777219 | p.Leu421Pro | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406622 | p.Leu240Arg | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2153987 | p.Glu709Lys | missense_variant | 1.0 |
katG | 2154313 | p.Lys600Thr | missense_variant | 0.22 |
PPE35 | 2168260 | c.2352delT | frameshift_variant | 0.29 |
PPE35 | 2168685 | p.Thr643Asn | missense_variant | 0.33 |
PPE35 | 2169356 | c.1257C>T | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ahpC | 2726121 | c.-72C>T | upstream_gene_variant | 0.49 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embC | 4241610 | p.Pro583Gln | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.19 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.15 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.15 |
aftB | 4268605 | c.231delG | frameshift_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |