Run ID: ERR6052096
Sample name:
Date: 02-04-2023 01:42:17
Number of reads: 1716557
Percentage reads mapped: 99.7
Strain: lineage4.1.1.3
Drug-resistance: RR-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 | 1.0 |
lineage4.1.1.3 | Euro-American (X-type) | X1;X3 | RD193 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761095 | p.Leu430Pro | missense_variant | 1.0 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.96 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 762473 | c.-897C>T | upstream_gene_variant | 0.12 |
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 |
rrs | 1472309 | n.464C>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474091 | n.434C>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1475200 | n.1543T>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476136 | n.2479A>G | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168274 | p.Thr780Met | missense_variant | 0.25 |
PPE35 | 2169792 | p.Asn274Ser | missense_variant | 0.11 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.36 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.37 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
ddn | 3986827 | c.-17T>C | upstream_gene_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 | 4326256 | p.Leu406Phe | missense_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
embR | 1413438 | c.1165_*2742del | stop_lost&conservative_inframe_deletion&splice_region_variant | 1.0 |