Run ID: SRR6045056
Sample name:
Date: 20-10-2023 18:18:25
Number of reads: 1192252
Percentage reads mapped: 92.74
Strain: lineage2.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rpsL p.Lys43Arg (1.00) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | 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 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_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 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472992 | n.1147A>G | non_coding_transcript_exon_variant | 0.69 |
rrs | 1473005 | n.1160C>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.69 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.64 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473130 | n.1285G>A | non_coding_transcript_exon_variant | 0.54 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.64 |
rrs | 1473172 | n.1327T>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474677 | n.1020A>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474734 | n.1077G>T | non_coding_transcript_exon_variant | 0.82 |
rrl | 1474749 | n.1092C>T | non_coding_transcript_exon_variant | 0.73 |
rrl | 1474753 | n.1097delC | non_coding_transcript_exon_variant | 0.85 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.69 |
rrl | 1474780 | n.1123C>T | non_coding_transcript_exon_variant | 0.85 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.69 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.92 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.92 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.8 |
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.56 |
rrl | 1475892 | n.2235A>G | non_coding_transcript_exon_variant | 0.71 |
rrl | 1475896 | n.2239A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475897 | n.2240T>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.81 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.81 |
rrl | 1475906 | n.2249C>T | non_coding_transcript_exon_variant | 0.76 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.56 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
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 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |