Run ID: ERR9992725
Sample name:
Date: 02-04-2023 13:46:38
Number of reads: 2988452
Percentage reads mapped: 65.44
Strain: lineage2.2.2
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 |
lineage2.2.2 | East-Asian (Beijing) | Beijing-RD105/RD207 | RD105;RD207 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761139 | p.His445Asn | missense_variant | 1.0 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
ethA | 4326333 | p.Ala381Pro | missense_variant | 1.0 | ethionamide |
gid | 4407967 | p.Leu79Ser | 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 | 576108 | p.Ala254Gly | missense_variant | 0.2 |
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 |
mmpR5 | 779109 | p.Leu40Phe | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472094 | n.249T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472210 | n.365A>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472222 | n.377G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472229 | n.384C>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472544 | n.699C>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472669 | n.824_825insTGG | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472677 | n.832C>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472678 | n.833T>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472708 | n.863T>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472733 | n.888G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472742 | n.897C>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472953 | n.1108G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472969 | n.1125_1126delCG | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472974 | n.1129A>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472975 | n.1130T>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472977 | n.1132G>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473001 | n.1156G>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473002 | n.1157G>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473008 | n.1163C>G | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473009 | n.1164T>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473020 | n.1175T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.15 |
inhA | 1674685 | p.Thr162Ser | missense_variant | 1.0 |
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 | 2221939 | p.Arg409Gln | 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 |