Run ID: ERR2653235
Sample name:
Date: 31-03-2023 22:44:03
Number of reads: 10880041
Percentage reads mapped: 98.41
Strain: lineage4.1.1
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 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472752 | n.907A>C | non_coding_transcript_exon_variant | 0.15 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288956 | p.Lys96Gln | missense_variant | 0.99 | pyrazinamide |
ald | 3087278 | c.464delG | frameshift_variant | 0.56 | cycloserine |
embB | 4247574 | p.Asp354Ala | missense_variant | 0.99 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7581 | p.Asp94Thr | missense_variant | 0.12 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 762027 | p.Leu741Phe | missense_variant | 0.99 |
rpoB | 762310 | p.His835Pro | missense_variant | 0.99 |
rpoB | 763123 | p.Ile1106Thr | missense_variant | 0.99 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpoC | 765730 | c.2361G>A | synonymous_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781767 | p.Glu70Lys | missense_variant | 1.0 |
rplC | 801115 | p.Ala103Thr | missense_variant | 0.99 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471868 | n.23T>G | non_coding_transcript_exon_variant | 0.89 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167931 | c.2682C>T | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726210 | c.18T>C | synonymous_variant | 1.0 |
Rv2752c | 3065692 | p.His167Arg | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3641447 | p.Thr302Met | missense_variant | 0.99 |
rpoA | 3877553 | p.Glu319Lys | missense_variant | 1.0 |
rpoA | 3878559 | c.-53_-52insC | upstream_gene_variant | 0.12 |
rpoA | 3878601 | c.-95delG | upstream_gene_variant | 0.38 |
rpoA | 3878613 | c.-113_-107delCAACCCA | upstream_gene_variant | 0.24 |
embC | 4240897 | c.1035C>G | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
ethA | 4327331 | p.Phe48Ser | missense_variant | 0.99 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |