Run ID: SRR10315587
Sample name:
Date: 02-04-2023 17:11:12
Number of reads: 5056639
Percentage reads mapped: 97.59
Strain: lineage4.1.1.3
Drug-resistance: RR-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 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
lineage4.1.1.3 | Euro-American (X-type) | X1;X3 | RD193 | 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 | 0.12 | streptomycin |
rrl | 1476471 | n.2814G>T | non_coding_transcript_exon_variant | 0.15 | linezolid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7234 | c.-68C>T | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.33 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.12 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpoC | 766488 | p.Pro1040Arg | 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 | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472682 | n.837_838delTT | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472687 | n.842_843insC | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475484 | n.1827A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.2 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3641807 | c.273C>G | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.17 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
ethR | 4327691 | p.Asp48Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |