Run ID: ERR040127
Sample name:
Date: 31-03-2023 08:46:29
Number of reads: 17266624
Percentage reads mapped: 99.31
Strain: lineage4.6.1.2
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 |
lineage4.6 | Euro-American | T;LAM | None | 1.0 |
lineage4.6.1 | Euro-American (Uganda) | T2 | RD724 | 1.0 |
lineage4.6.1.2 | Euro-American | T2 | RD724 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Asp | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
ethA | 4327147 | p.Trp109* | stop_gained | 1.0 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7539 | p.Thr80Ala | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.33 |
rpoC | 764725 | p.Phe452Leu | missense_variant | 0.22 |
rpoC | 767305 | p.Tyr1312* | stop_gained | 0.24 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1416410 | p.Leu313Arg | missense_variant | 1.0 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.27 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473343 | n.1498G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474380 | n.723G>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1475363 | n.1706C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476408 | n.2751G>C | non_coding_transcript_exon_variant | 0.16 |
inhA | 1674465 | c.264C>T | synonymous_variant | 1.0 |
inhA | 1674952 | p.Pro251Ala | missense_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102891 | p.Phe51Ser | missense_variant | 0.19 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.26 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.2 |
ahpC | 2726287 | p.Gly32Asp | missense_variant | 1.0 |
pepQ | 2859381 | c.1038C>G | synonymous_variant | 0.26 |
Rv2752c | 3064552 | p.Arg547Pro | missense_variant | 0.24 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.21 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.17 |
thyA | 3073817 | p.Gln219Glu | missense_variant | 0.28 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3613029 | c.88T>C | synonymous_variant | 1.0 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.22 |
fbiB | 3642734 | c.1200G>C | synonymous_variant | 0.17 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.18 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.33 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.33 |
embA | 4243190 | c.-43G>C | upstream_gene_variant | 1.0 |
embA | 4243709 | c.477C>T | synonymous_variant | 1.0 |
embA | 4244375 | c.1143C>G | synonymous_variant | 0.24 |
embA | 4245055 | p.Thr608Asn | missense_variant | 1.0 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.23 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.24 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338635 | c.-114A>C | upstream_gene_variant | 1.0 |
gid | 4408115 | p.Gly30Arg | missense_variant | 1.0 |