Run ID: SRR13861241
Sample name:
Date: 03-04-2023 09:27:06
Number of reads: 1499799
Percentage reads mapped: 75.06
Strain: lineage4.9
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.16 | streptomycin |
katG | 2154411 | c.1700delT | frameshift_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7466 | c.165G>A | synonymous_variant | 0.12 |
gyrA | 7469 | c.168C>T | synonymous_variant | 0.12 |
gyrA | 7472 | c.171T>C | synonymous_variant | 0.13 |
gyrA | 7475 | c.174A>C | synonymous_variant | 0.13 |
gyrA | 7480 | p.Phe60Tyr | missense_variant | 0.14 |
gyrA | 7484 | c.183T>C | synonymous_variant | 0.15 |
gyrA | 7487 | c.186C>G | synonymous_variant | 0.14 |
gyrA | 7490 | c.189C>T | synonymous_variant | 0.13 |
gyrA | 7523 | c.222C>G | synonymous_variant | 0.13 |
gyrA | 7949 | c.648G>T | synonymous_variant | 0.92 |
gyrA | 8123 | p.Leu274Phe | missense_variant | 0.89 |
gyrA | 8198 | c.897T>C | synonymous_variant | 0.14 |
gyrA | 9768 | p.Gly823Cys | missense_variant | 1.0 |
rpoC | 763594 | c.225C>T | synonymous_variant | 0.11 |
rpoC | 763633 | c.264T>C | synonymous_variant | 0.12 |
rpoC | 763636 | c.267T>C | synonymous_variant | 0.12 |
rpoC | 763642 | c.273G>C | synonymous_variant | 0.13 |
rpoC | 763658 | c.289_291delCTTinsTTG | synonymous_variant | 0.18 |
rpoC | 763675 | c.306C>G | synonymous_variant | 0.15 |
rpoC | 763696 | c.327T>C | synonymous_variant | 0.17 |
rpoC | 763702 | c.333C>G | synonymous_variant | 0.16 |
rpoC | 763708 | c.339G>A | synonymous_variant | 0.14 |
rpoC | 763709 | c.340C>T | synonymous_variant | 0.14 |
rpoC | 763714 | c.345G>C | synonymous_variant | 0.17 |
rpoC | 763717 | c.348T>C | synonymous_variant | 0.15 |
rpoC | 763723 | c.354G>C | synonymous_variant | 0.15 |
rpoC | 763732 | c.363C>G | synonymous_variant | 0.17 |
rpoC | 763734 | p.Pro122Leu | missense_variant | 0.83 |
rpoC | 763744 | c.375G>C | synonymous_variant | 0.15 |
rpoC | 765970 | c.2601C>T | synonymous_variant | 0.12 |
rpoC | 765994 | c.2625A>T | synonymous_variant | 0.12 |
rpoC | 766672 | c.3303T>C | synonymous_variant | 0.13 |
rpoC | 766726 | c.3357T>C | synonymous_variant | 0.15 |
rpoC | 766738 | c.3369G>T | synonymous_variant | 0.15 |
rpoC | 766750 | c.3381C>G | synonymous_variant | 0.13 |
rpoC | 766765 | c.3396A>C | synonymous_variant | 0.13 |
rpoC | 766801 | c.3432C>A | synonymous_variant | 0.12 |
rpoC | 766861 | c.3492G>C | synonymous_variant | 0.13 |
rpoC | 766963 | c.3594T>C | synonymous_variant | 0.13 |
rpsL | 781892 | c.333A>G | synonymous_variant | 0.13 |
rpsL | 781898 | c.339A>T | synonymous_variant | 0.13 |
rpsL | 781916 | c.357T>C | synonymous_variant | 0.14 |
fbiC | 1303914 | c.984C>G | synonymous_variant | 0.13 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472614 | n.769G>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472669 | n.824_825insTAGG | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474249 | n.592G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474904 | n.1247G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476268 | n.2611A>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476275 | n.2618T>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476279 | n.2622G>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476572 | n.2915G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476640 | n.2983C>A | non_coding_transcript_exon_variant | 0.98 |
rpsA | 1834195 | c.654G>C | synonymous_variant | 0.12 |
tlyA | 1918034 | p.Val32Ala | missense_variant | 1.0 |
katG | 2155918 | p.Ala65Val | missense_variant | 1.0 |
PPE35 | 2168767 | p.Ser616Gly | missense_variant | 1.0 |
Rv1979c | 2222377 | p.Val263Gly | missense_variant | 1.0 |
ribD | 2986993 | p.Gly52Val | missense_variant | 1.0 |
Rv2752c | 3065787 | c.405G>C | synonymous_variant | 1.0 |
Rv2752c | 3065993 | p.Val67Ile | missense_variant | 0.13 |
Rv2752c | 3065994 | c.198T>C | synonymous_variant | 0.14 |
Rv3083 | 3448649 | p.Arg49Pro | missense_variant | 1.0 |
Rv3236c | 3613067 | p.Val17Gly | missense_variant | 1.0 |
Rv3236c | 3613315 | c.-199T>G | upstream_gene_variant | 1.0 |
fbiA | 3640435 | c.-108A>C | upstream_gene_variant | 1.0 |
fbiB | 3642614 | c.1080C>T | synonymous_variant | 0.14 |
fbiB | 3642620 | c.1086T>C | synonymous_variant | 0.14 |
clpC1 | 4038790 | c.1915C>T | synonymous_variant | 0.12 |
clpC1 | 4039842 | c.862_863insT | frameshift_variant | 0.98 |
panD | 4044103 | p.Ile60Ser | missense_variant | 0.98 |
embC | 4240900 | c.1038A>G | synonymous_variant | 0.13 |
embC | 4241035 | c.1173G>A | synonymous_variant | 0.12 |
embC | 4241137 | c.1275G>C | synonymous_variant | 0.13 |
embC | 4241158 | c.1296T>C | synonymous_variant | 0.13 |
embC | 4241161 | c.1299C>G | synonymous_variant | 0.13 |
embA | 4245031 | p.Arg600Gln | missense_variant | 0.98 |
gid | 4408218 | c.-16G>T | upstream_gene_variant | 1.0 |