Run ID: ERR4821519
Sample name:
Date: 20-10-2023 09:39:27
Number of reads: 3967465
Percentage reads mapped: 90.71
Strain: lineage3
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.55) |
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.55 | 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 | 8164 | p.Ala288Asp | missense_variant | 0.12 |
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 | 0.99 |
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 | 1471923 | n.78T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1471934 | n.89A>G | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472123 | n.278A>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472431 | n.586G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472435 | n.590T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472464 | n.619A>G | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.92 |
rrs | 1472607 | n.762G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472612 | n.767G>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.68 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.59 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473202 | n.1357C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1475897 | n.2240T>C | non_coding_transcript_exon_variant | 0.45 |
rrl | 1475900 | n.2243A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475902 | n.2245T>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1475906 | n.2249C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.55 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.55 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.47 |
rrl | 1475997 | n.2340A>T | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476524 | n.2867_2868delCAinsT | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476535 | n.2878G>A | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476539 | n.2882A>G | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.48 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | 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 |
ald | 3086960 | c.141C>T | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embC | 4240073 | p.Glu71Lys | missense_variant | 0.99 |
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 |