Run ID: ERR270771
Sample name:
Date: 31-03-2023 23:26:44
Number of reads: 2517102
Percentage reads mapped: 75.37
Strain: lineage3
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 0.98 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 0.77 | streptomycin |
rrs | 1472644 | n.799C>T | non_coding_transcript_exon_variant | 0.22 | streptomycin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.26 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8948 | c.1647G>A | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491414 | p.Val211Ala | missense_variant | 0.88 |
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 | 0.97 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472147 | n.302G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472181 | n.336G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472222 | n.377G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472229 | n.384C>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472549 | n.704G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472573 | n.728C>G | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472607 | n.762G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472612 | n.767G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473199 | n.1356delA | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.16 |
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 | 1473255 | n.1410A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473260 | n.1415G>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474824 | n.1167A>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.11 |
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 |
pncA | 2289047 | c.195C>T | synonymous_variant | 0.96 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 0.98 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.37 |
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 |
alr | 3840354 | p.Asp356Gly | missense_variant | 0.95 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.3 |
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 | 0.95 |
gid | 4407703 | p.Ala167Asp | missense_variant | 0.92 |