Run ID: ERR4815178
Sample name:
Date: 20-10-2023 07:45:48
Number of reads: 2925291
Percentage reads mapped: 96.28
Strain: lineage4.8
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.18) |
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 |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.18 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 576263 | c.916C>T | synonymous_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 | 1472150 | n.305T>G | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472155 | n.310C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476443 | n.2786G>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476455 | n.2798C>G | non_coding_transcript_exon_variant | 0.16 |
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 |
Rv2752c | 3064875 | c.1317C>G | synonymous_variant | 1.0 |
ald | 3086987 | p.Gln56His | missense_variant | 1.0 |
fprA | 3474119 | p.Met38Thr | missense_variant | 1.0 |
fprA | 3474925 | p.Thr307Ala | missense_variant | 1.0 |
fbiA | 3641477 | p.Asp312Gly | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338596 | c.-75G>A | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |