Run ID: ERR4819834
Sample name:
Date: 20-10-2023 09:03:34
Number of reads: 3127403
Percentage reads mapped: 98.37
Strain: lineage4.8
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | ||
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | 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 | 1472108 | n.263C>T | non_coding_transcript_exon_variant | 0.68 |
rrs | 1472122 | n.277G>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472123 | n.278A>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472124 | n.279C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.84 |
rrs | 1472155 | n.310C>T | non_coding_transcript_exon_variant | 0.85 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.83 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472954 | n.1109T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 0.58 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.65 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1473172 | n.1327T>G | non_coding_transcript_exon_variant | 0.68 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.68 |
rrs | 1473221 | n.1376C>T | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.94 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.86 |
rrl | 1476429 | n.2772A>T | non_coding_transcript_exon_variant | 0.86 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.7 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086999 | c.180C>G | synonymous_variant | 1.0 |
clpC1 | 4039729 | p.Asp326Asn | missense_variant | 1.0 |
embC | 4241086 | c.1224G>A | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethA | 4327461 | p.Leu5Phe | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |