Run ID: ERR2515662
Sample name:
Date: 20-10-2023 14:00:55
Number of reads: 946502
Percentage reads mapped: 96.78
Strain: lineage2.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | R | pncA p.Arg140Pro (1.00) |
Streptomycin | R | rrs n.888G>A (0.42) |
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 |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.42 | streptomycin |
pncA | 2288823 | p.Arg140Pro | missense_variant | 1.0 | pyrazinamide |
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 | 1472598 | n.753A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472614 | n.769G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472669 | n.824_825insTAGG | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472678 | n.833_834delTTinsGCC | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472684 | n.839_845delGGGATCCinsA | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472825 | n.980G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472826 | n.981G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472836 | n.991G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472837 | n.992_993insTTTG | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472841 | n.996_1002delGGACGCGinsAC | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472858 | n.1013_1014insA | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472861 | n.1016G>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472867 | n.1022T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472869 | n.1024_1025delGTinsTCGGG | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472873 | n.1028C>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472875 | n.1030T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472876 | n.1031G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472877 | n.1032T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472880 | n.1035_1036insA | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.2 |
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 |
folC | 2747167 | p.Lys144Asn | missense_variant | 1.0 |
ald | 3086739 | c.-81G>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 |
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 |