Run ID: ERR4816191
Sample name:
Date: 20-10-2023 08:02:00
Number of reads: 2183002
Percentage reads mapped: 93.24
Strain: lineage3.1.2
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.72) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 | 1.0 |
lineage3.1.2 | East-African-Indian | CAS;CAS2 | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.72 | streptomycin |
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 | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | 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 | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.96 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.81 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.81 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472954 | n.1109T>C | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 0.61 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.82 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.72 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.72 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.64 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.69 |
rrs | 1473221 | n.1376C>T | non_coding_transcript_exon_variant | 0.52 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.56 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476429 | n.2772A>T | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.5 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918104 | c.165G>A | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155697 | p.Ala139Thr | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168604 | p.Pro670Leu | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | 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 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |