Run ID: ERR040135
Sample name:
Date: 31-03-2023 08:47:00
Number of reads: 17351451
Percentage reads mapped: 99.25
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.Ser315Asn | missense_variant | 1.0 | isoniazid |
embB | 4247429 | p.Met306Val | missense_variant | 0.99 | ethambutol |
gid | 4408100 | c.102delG | frameshift_variant | 1.0 | streptomycin |
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 | 9276 | c.1975C>T | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.3 |
rpoC | 764810 | p.Pro481Thr | missense_variant | 1.0 |
rpoC | 767305 | p.Tyr1312* | stop_gained | 0.26 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777399 | p.Thr361Arg | missense_variant | 0.22 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303391 | p.Arg154His | missense_variant | 1.0 |
Rv1258c | 1407522 | c.-182C>G | upstream_gene_variant | 0.29 |
embR | 1416410 | p.Leu313Arg | missense_variant | 0.99 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.26 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 0.99 |
rrs | 1473343 | n.1498G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475363 | n.1706C>A | non_coding_transcript_exon_variant | 0.23 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102891 | p.Phe51Ser | missense_variant | 0.2 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.41 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.23 |
pepQ | 2859381 | c.1038C>G | synonymous_variant | 0.26 |
Rv2752c | 3064552 | p.Arg547Pro | missense_variant | 0.23 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.25 |
Rv2752c | 3065920 | p.Pro91Leu | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.26 |
fbiB | 3642734 | c.1200G>C | synonymous_variant | 0.24 |
rpoA | 3878238 | p.Asp90Glu | missense_variant | 0.15 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.35 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.47 |
embC | 4242827 | p.Leu989Val | missense_variant | 0.23 |
embA | 4244375 | c.1143C>G | synonymous_variant | 0.27 |
embA | 4245055 | p.Thr608Asn | missense_variant | 0.99 |
ubiA | 4269131 | p.Leu235Val | missense_variant | 1.0 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.24 |
ethA | 4327107 | p.His123Tyr | missense_variant | 1.0 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.26 |
ethR | 4328171 | p.Val208Ala | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |