Run ID: SRR6797751
Sample name:
Date: 04-04-2023 16:17:10
Number of reads: 2838474
Percentage reads mapped: 82.08
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 | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.97 | isoniazid |
embB | 4247429 | p.Met306Leu | 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 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 0.98 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763501 | p.Asp44Glu | missense_variant | 1.0 |
rpoC | 764921 | p.Glu518Gln | 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 | 0.98 |
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 | 1472690 | n.845C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472697 | n.852T>G | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472700 | n.855C>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472708 | n.863T>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472803 | n.958T>C | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473147 | n.1302G>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473150 | n.1305T>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473161 | n.1316A>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473164 | n.1319C>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473249 | n.1404T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473262 | n.1417T>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474184 | n.527C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474186 | n.529A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474187 | n.530T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474199 | n.542G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474200 | n.545delT | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474218 | n.561T>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474228 | n.571T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474252 | n.595T>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474265 | n.608G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474268 | n.611C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474275 | n.618T>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475783 | n.2126T>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475866 | n.2209T>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475869 | n.2212C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476251 | n.2594T>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476297 | n.2640C>A | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476353 | n.2696G>A | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476359 | n.2702C>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476565 | n.2908G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476566 | n.2909A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476577 | n.2920T>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476578 | n.2921C>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476592 | n.2935G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476603 | n.2946G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476605 | n.2948C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476608 | n.2951C>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476614 | n.2957A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476629 | n.2972C>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476637 | n.2980C>A | non_coding_transcript_exon_variant | 0.18 |
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 |
Rv2752c | 3066237 | c.-47_-46delCCinsTT | 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 |