Run ID: ERR10762318
Sample name:
Date: 31-03-2023 11:03:26
Number of reads: 2515125
Percentage reads mapped: 88.82
Strain: lineage2.2.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
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 |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 0.72 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
thyX | 3067961 | c.-16C>T | upstream_gene_variant | 1.0 | para-aminosalicylic_acid |
thyA | 3073808 | p.Arg222Gly | missense_variant | 1.0 | para-aminosalicylic_acid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
pncA | 2282849 | c.-1559_*5831del | transcript_ablation | 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 |
rpoB | 761268 | p.Ile488Val | missense_variant | 0.99 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 766645 | p.Glu1092Asp | missense_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 | 0.99 |
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 | 1472655 | n.810G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472674 | n.829T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472677 | n.832C>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472683 | n.838T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472685 | n.840G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473122 | n.1277T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473127 | n.1282G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473283 | n.1438T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474627 | n.970G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474660 | n.1003G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474663 | n.1006C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474753 | n.1097delC | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474790 | n.1133C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474830 | n.1173A>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474831 | n.1174A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474832 | n.1175A>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475896 | n.2239A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475897 | n.2240T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476251 | n.2594T>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.11 |
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 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.31 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.3 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087818 | p.Cys333Trp | missense_variant | 0.12 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.33 |
fbiD | 3339746 | p.Ala210Gly | missense_variant | 0.33 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiB | 3641810 | c.276G>C | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4248324 | p.Ala604Gly | missense_variant | 0.23 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4326339 | p.Asn379Asp | 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 |