Run ID: ERR779913
Sample name:
Date: 02-04-2023 05:55:02
Number of reads: 4288517
Percentage reads mapped: 92.9
Strain: lineage4.1.2.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472751 | n.906A>G | non_coding_transcript_exon_variant | 0.81 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289252 | c.-11A>G | upstream_gene_variant | 1.0 | pyrazinamide |
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 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 764840 | p.Ile491Val | missense_variant | 0.59 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | 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 | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472210 | n.365A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472215 | n.370A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472545 | n.700A>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474790 | n.1133C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474798 | n.1141C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1474800 | n.1143T>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474804 | n.1147C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.3 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474830 | n.1173A>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1474831 | n.1174A>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1474896 | n.1239A>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.17 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.21 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407940 | p.Val88Ala | missense_variant | 1.0 |