Run ID: ERR5987345
Sample name:
Date: 02-04-2023 01:32:34
Number of reads: 813578
Percentage reads mapped: 83.3
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 | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
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 |
pncA | 2289220 | p.Asp8Asn | missense_variant | 1.0 | pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
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 |
gyrA | 9569 | p.Asp756Glu | missense_variant | 0.15 |
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 | 762265 | p.Gly820Asp | missense_variant | 0.11 |
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 | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472669 | n.824_825insTAGA | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472678 | n.833T>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472682 | n.839_843delGGGAT | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472689 | n.844C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472701 | n.856T>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472958 | n.1114delT | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472970 | n.1125C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472971 | n.1126G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472973 | n.1129_1130delAT | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472977 | n.1132G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475687 | n.2030C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475688 | n.2031G>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475696 | n.2039T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475703 | n.2046A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475707 | n.2050T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475713 | n.2056C>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475716 | n.2059A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475751 | n.2094C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475752 | n.2095C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475753 | n.2096C>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475769 | n.2112T>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475775 | n.2118G>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475776 | n.2119G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475777 | n.2120A>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475783 | n.2126T>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475866 | n.2209T>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476573 | n.2916A>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476577 | n.2920T>G | non_coding_transcript_exon_variant | 0.11 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.19 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.19 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.29 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.29 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.29 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.35 |
inhA | 1674377 | p.Pro59Gln | missense_variant | 0.12 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102575 | p.Glu156Asp | missense_variant | 0.1 |
katG | 2154584 | p.Pro510Thr | missense_variant | 0.14 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.2 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.2 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519258 | c.1146delT | frameshift_variant | 0.13 |
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 |
alr | 3841356 | p.Ser22Leu | missense_variant | 1.0 |
rpoA | 3877963 | p.Arg182Leu | 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 |
ethR | 4327318 | c.-231T>C | upstream_gene_variant | 0.11 |
ethA | 4327322 | p.Pro51His | 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 |