Run ID: ERR4819196
Sample name:
Date: 20-10-2023 08:53:09
Number of reads: 1324841
Percentage reads mapped: 96.83
Strain: lineage4.1.1.1
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
lineage4.1.1.1 | Euro-American (X-type) | X2 | RD183 | 0.87 |
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 | 1.0 |
gyrA | 7620 | p.Tyr107His | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.98 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.35 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.75 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.75 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.72 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.71 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.53 |
rrs | 1473093 | n.1248C>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473102 | n.1257C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.53 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.53 |
rrs | 1473115 | n.1270G>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.53 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.45 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2725934 | c.-259G>C | upstream_gene_variant | 1.0 |
ahpC | 2726210 | c.18T>C | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339550 | p.Gly145Arg | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3641447 | p.Thr302Met | missense_variant | 1.0 |
rpoA | 3877553 | p.Glu319Lys | missense_variant | 1.0 |
embC | 4240897 | c.1035C>G | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |