Run ID: SRR15217980
Sample name:
Date: 03-04-2023 12:41:14
Number of reads: 1817918
Percentage reads mapped: 98.32
Strain: lineage4
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
mmpR5 | 779181 | c.198dupG | frameshift_variant | 1.0 | clofazimine, bedaquiline |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.98 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.98 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 575837 | c.490C>T | synonymous_variant | 1.0 |
rpoB | 761889 | p.Val695Leu | missense_variant | 0.98 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777875 | c.605delG | frameshift_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801009 | c.201A>G | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474425 | n.768A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474777 | n.1120T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474790 | n.1133C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474794 | n.1137C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474797 | n.1140_1141insTATA | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474800 | n.1144_1147delGTGC | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474830 | n.1173A>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474831 | n.1174A>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476204 | n.2547C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476214 | n.2557G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476523 | n.2866T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.11 |
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 |
ndh | 2101831 | c.1212G>A | synonymous_variant | 1.0 |
katG | 2156173 | c.-62C>A | upstream_gene_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.18 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.18 |
Rv1979c | 2223214 | c.-50A>C | upstream_gene_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3065517 | c.675C>T | synonymous_variant | 1.0 |
thyA | 3074495 | c.-24C>T | upstream_gene_variant | 0.98 |
fprA | 3474299 | p.Asp98Gly | missense_variant | 1.0 |
Rv3236c | 3612219 | p.Val300Ile | missense_variant | 1.0 |
rpoA | 3878595 | c.-88C>T | upstream_gene_variant | 0.21 |
rpoA | 3878635 | c.-128C>T | upstream_gene_variant | 0.27 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.95 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.12 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.12 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.12 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.12 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.13 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.14 |
ethA | 4328317 | c.-844C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407967 | p.Leu79Trp | missense_variant | 1.0 |