Run ID: ERR2516674
Sample name:
Date: 31-03-2023 21:40:16
Number of reads: 1261044
Percentage reads mapped: 99.46
Strain: lineage4.1.2.1
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 |
lineage4.1 | 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 |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155648 | p.Tyr155Cys | missense_variant | 0.97 | 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 |
rpoB | 761707 | c.1910_1912delTCG | disruptive_inframe_deletion | 0.11 |
rpoC | 765053 | p.Ser562Pro | missense_variant | 0.1 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406470 | c.870delC | frameshift_variant | 0.14 |
Rv1258c | 1406646 | p.Asp232Gly | missense_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102048 | p.Val332Ala | missense_variant | 0.1 |
ndh | 2102122 | c.921C>T | synonymous_variant | 0.13 |
katG | 2155012 | p.Pro367Arg | missense_variant | 0.13 |
katG | 2156120 | c.-9A>C | upstream_gene_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.27 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.19 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289250 | c.-9G>A | upstream_gene_variant | 0.11 |
pncA | 2289480 | c.-239G>A | upstream_gene_variant | 0.12 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.3 |
Rv2752c | 3065009 | p.Pro395Ser | missense_variant | 0.65 |
Rv2752c | 3066043 | p.Pro50Leu | missense_variant | 0.11 |
Rv2752c | 3066053 | c.138delT | frameshift_variant | 0.13 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.33 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339153 | p.Leu12Phe | missense_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474589 | p.Val195Leu | missense_variant | 1.0 |
fbiB | 3642772 | p.Asp413Ala | missense_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.37 |
embC | 4242827 | p.Leu989Val | missense_variant | 0.17 |
aftB | 4267977 | p.Pro287Leu | missense_variant | 0.1 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407946 | p.Leu86Pro | missense_variant | 1.0 |