Run ID: ERR163965
Sample name:
Date: 21-10-2023 03:47:37
Number of reads: 2615082
Percentage reads mapped: 92.66
Strain: lineage4.3.4.2.1
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.99 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 0.98 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | missense_variant | 0.97 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7760 | c.459C>T | synonymous_variant | 0.13 |
gyrA | 7763 | c.462T>C | synonymous_variant | 0.13 |
gyrA | 7799 | c.498A>G | synonymous_variant | 0.16 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9311 | c.2010C>T | synonymous_variant | 0.13 |
mshA | 575537 | p.Asp64Asn | missense_variant | 0.97 |
rpoB | 760223 | c.417T>C | synonymous_variant | 0.12 |
rpoC | 763594 | c.225C>T | synonymous_variant | 0.12 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781832 | c.273T>C | synonymous_variant | 0.13 |
rpsL | 781841 | c.282C>G | synonymous_variant | 0.12 |
rplC | 800648 | c.-161A>C | upstream_gene_variant | 0.13 |
rplC | 800654 | c.-155T>C | upstream_gene_variant | 0.15 |
rplC | 801174 | c.366T>C | synonymous_variant | 0.14 |
rplC | 801222 | c.414T>C | synonymous_variant | 0.15 |
rplC | 801228 | c.420T>C | synonymous_variant | 0.14 |
rplC | 801246 | c.438C>G | synonymous_variant | 0.13 |
rplC | 801249 | c.441T>G | synonymous_variant | 0.13 |
rplC | 801255 | c.447C>T | synonymous_variant | 0.13 |
fbiC | 1304034 | c.1104A>G | synonymous_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472969 | n.1124A>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472970 | n.1125C>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472977 | n.1132G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472978 | n.1133T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474140 | n.483C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474151 | n.494C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1475114 | n.1457C>T | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.24 |
rpsA | 1834225 | c.684C>G | synonymous_variant | 0.16 |
rpsA | 1834297 | c.756C>G | synonymous_variant | 0.16 |
rpsA | 1834303 | c.762T>G | synonymous_variant | 0.15 |
rpsA | 1834306 | c.765T>C | synonymous_variant | 0.16 |
rpsA | 1834639 | c.1098T>C | synonymous_variant | 0.12 |
rpsA | 1834666 | c.1125G>C | synonymous_variant | 0.13 |
rpsA | 1834688 | c.1147_1149delAGTinsTCC | synonymous_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.94 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
alr | 3840719 | c.702A>G | synonymous_variant | 1.0 |
rpoA | 3878028 | c.480G>C | synonymous_variant | 0.12 |
rpoA | 3878031 | c.477T>C | synonymous_variant | 0.13 |
rpoA | 3878040 | c.468T>C | synonymous_variant | 0.14 |
rpoA | 3878055 | c.453A>G | synonymous_variant | 0.15 |
rpoA | 3878061 | c.447G>C | synonymous_variant | 0.13 |
rpoA | 3878067 | c.441C>G | synonymous_variant | 0.13 |
rpoA | 3878070 | c.438T>C | synonymous_variant | 0.13 |
rpoA | 3878220 | c.288C>T | synonymous_variant | 0.13 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.95 |
clpC1 | 4039586 | c.1119G>C | synonymous_variant | 0.16 |
clpC1 | 4039610 | c.1095G>C | synonymous_variant | 0.21 |
clpC1 | 4039616 | c.1089G>C | synonymous_variant | 0.21 |
clpC1 | 4039622 | c.1083C>G | synonymous_variant | 0.19 |
panD | 4043938 | p.Ile115Thr | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4247389 | c.876C>A | synonymous_variant | 0.11 |
embB | 4248070 | c.1557T>C | synonymous_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |