Run ID: ERR1665402
Sample name:
Date: 31-03-2023 14:55:20
Number of reads: 4988378
Percentage reads mapped: 92.09
Strain: lineage2.2.1
Drug-resistance: MDR-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 |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.6 | streptomycin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 0.89 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.99 | isoniazid |
pncA | 2288902 | p.Thr114Pro | missense_variant | 1.0 | pyrazinamide |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
ethA | 4326964 | c.509delA | frameshift_variant | 1.0 | ethionamide, ethionamide |
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 | 762285 | p.Arg827Cys | 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 | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472548 | n.703A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472669 | n.824_825insTGGA | non_coding_transcript_exon_variant | 0.68 |
rrs | 1472678 | n.833T>G | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472682 | n.839_843delGGGAT | non_coding_transcript_exon_variant | 0.65 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.65 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.66 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472858 | n.1013_1014insA | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472861 | n.1016G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472863 | n.1018T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472873 | n.1028C>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472875 | n.1030T>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472876 | n.1031G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472877 | n.1032T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472880 | n.1035_1036insA | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473249 | n.1404T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473255 | n.1410A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473260 | n.1415G>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473281 | n.1436C>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473296 | n.1451G>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473297 | n.1452G>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473303 | n.1458T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473316 | n.1471C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473318 | n.1473G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473319 | n.1474C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473327 | n.1482A>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473328 | n.1483C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473352 | n.1507C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476229 | n.2572C>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476252 | n.2595T>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476524 | n.2867C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.22 |
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 | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086731 | c.-89A>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 | 4243346 | c.114A>G | synonymous_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338371 | p.Thr51Pro | 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 |