Run ID: ERR181864
Sample name:
Date: 31-03-2023 15:22:48
Number of reads: 3891129
Percentage reads mapped: 83.64
Strain: lineage3.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 | 1.0 |
lineage3.1.1 | East-African-Indian | CAS1-Kili | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
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 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_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 |
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 | 0.18 |
rrs | 1472102 | n.257G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.49 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472222 | n.377G>A | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472229 | n.384C>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472253 | n.408G>C | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472271 | n.426T>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472277 | n.432C>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472544 | n.699C>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473080 | n.1235C>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473081 | n.1236C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473097 | n.1252G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473099 | n.1254T>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474902 | n.1245T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.13 |
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 | 2169317 | c.1296C>T | synonymous_variant | 0.18 |
PPE35 | 2170461 | p.Gly51Glu | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 0.99 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
pepQ | 2859787 | p.Val211Ala | missense_variant | 1.0 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.23 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.22 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.21 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.22 |
embC | 4241562 | p.Arg567His | missense_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.26 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |