Run ID: ERR2515995
Sample name:
Date: 31-03-2023 21:14:00
Number of reads: 769772
Percentage reads mapped: 99.61
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 | 0.99 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155167 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289252 | c.-11A>G | upstream_gene_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
embB | 4247496 | p.Asp328Gly | missense_variant | 1.0 | ethambutol |
ethA | 4327484 | c.-11A>G | upstream_gene_variant | 1.0 | ethionamide |
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 | 0.98 |
mshA | 576561 | p.Leu405Arg | missense_variant | 1.0 |
mshA | 576563 | c.1216C>T | synonymous_variant | 1.0 |
rpoC | 764805 | p.Gln479Arg | missense_variant | 1.0 |
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 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1476795 | n.3138A>G | splice_region_variant&non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155741 | p.Gly124Ala | missense_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726210 | c.18T>C | synonymous_variant | 1.0 |
Rv2752c | 3064602 | c.1590T>A | synonymous_variant | 0.1 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449630 | p.Val376Ala | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3641447 | p.Thr302Met | missense_variant | 1.0 |
rpoA | 3877553 | p.Glu319Lys | missense_variant | 1.0 |
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 |
embA | 4244666 | c.1434G>C | synonymous_variant | 0.1 |
embA | 4244705 | c.1473G>A | synonymous_variant | 0.13 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
embB | 4249685 | p.Ala1058Thr | missense_variant | 0.14 |
aftB | 4268509 | p.Leu110Met | missense_variant | 0.12 |
ubiA | 4269864 | c.-32delG | upstream_gene_variant | 0.1 |
whiB6 | 4338365 | p.Cys53Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407929 | p.Glu92Lys | missense_variant | 1.0 |