Run ID: ERR181771
Sample name:
Date: 31-03-2023 15:19:01
Number of reads: 2570109
Percentage reads mapped: 88.81
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 | 7669 | p.Pro123Gln | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490751 | c.-32T>G | upstream_gene_variant | 0.28 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 759620 | c.-187A>C | upstream_gene_variant | 0.31 |
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 | 1472708 | n.863T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472803 | n.958T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473161 | n.1316A>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473164 | n.1319C>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476251 | n.2594T>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476297 | n.2640C>A | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476353 | n.2696G>A | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476359 | n.2702C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.95 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169317 | c.1296C>T | synonymous_variant | 0.2 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.23 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.34 |
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 | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
pepQ | 2859904 | p.Val172Gly | missense_variant | 0.28 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.16 |
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 | 0.25 |
embC | 4240172 | p.Val104Met | missense_variant | 1.0 |
embC | 4241562 | p.Arg567His | missense_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
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 | 1.0 |