Run ID: ERR11081575
Sample name:
Date: 09-04-2023 03:30:33
Number of reads: 3698380
Percentage reads mapped: 99.69
Strain: lineage4.8;lineage4.1.2.1
Drug-resistance: Sensitive
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 | 0.2 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 0.76 |
lineage4.1.2 | Euro-American | T;H | None | 0.23 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 0.21 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.2 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 0.23 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.31 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.19 |
rpoB | 760115 | c.309C>T | synonymous_variant | 0.28 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.21 |
rpoC | 766085 | p.Pro906Ala | missense_variant | 0.77 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
atpE | 1460992 | c.-53A>C | upstream_gene_variant | 0.76 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 0.84 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168863 | c.1750C>T | synonymous_variant | 0.23 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.99 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 0.25 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.21 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.15 |
alr | 3840764 | c.657G>C | synonymous_variant | 0.8 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 0.28 |
embA | 4245507 | p.Gly759Arg | missense_variant | 0.19 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |