Run ID: ERR4423724
Sample name:
Date: 01-04-2023 05:58:58
Number of reads: 4017581
Percentage reads mapped: 77.37
Strain: lineage3
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.52 | streptomycin |
gid | 4408100 | c.102delG | frameshift_variant | 1.0 | streptomycin |
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 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764817 | p.Val483Gly | missense_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 | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472122 | n.277G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472215 | n.370A>G | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472234 | n.389T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472262 | n.417C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472271 | n.426T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472543 | n.699_700delCA | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472596 | n.751G>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472598 | n.753A>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472614 | n.769G>T | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472857 | n.1012A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.23 |
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 | 0.25 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476572 | n.2915G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.16 |
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 | 2170048 | p.Leu189Val | missense_variant | 0.15 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.1 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.98 |
fbiB | 3642098 | c.564G>A | synonymous_variant | 1.0 |
alr | 3840636 | p.Pro262Gln | missense_variant | 1.0 |
rpoA | 3878599 | c.-92C>G | upstream_gene_variant | 0.4 |
rpoA | 3878622 | c.-115C>G | upstream_gene_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245883 | p.Gly884Asp | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |