Run ID: SRR19303806
Sample name:
Date: 03-04-2023 21:07:38
Number of reads: 1984227
Percentage reads mapped: 40.28
Strain: lineage4.1.2.1
Drug-resistance: Sensitive
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 |
---|
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 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.22 |
mshA | 576113 | p.Arg256Gly | missense_variant | 0.33 |
rpoB | 759852 | p.Ser16Cys | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 764521 | c.1152T>C | synonymous_variant | 0.12 |
rpoC | 764536 | c.1167G>C | synonymous_variant | 0.15 |
rpoC | 764537 | p.Pro390Val | missense_variant | 0.28 |
rpoC | 764540 | p.Val391Ile | missense_variant | 0.23 |
rpoC | 764548 | c.1179G>C | synonymous_variant | 0.21 |
rpoC | 764549 | p.Pro394Ala | missense_variant | 0.21 |
rpoC | 764552 | p.Gly395Asn | missense_variant | 0.22 |
rpoC | 764557 | p.Asn396Lys | missense_variant | 0.2 |
rpoC | 764566 | c.1197C>G | synonymous_variant | 0.24 |
rpoC | 764575 | c.1206T>C | synonymous_variant | 0.25 |
rpoC | 764576 | p.Ser403Ala | missense_variant | 0.25 |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.24 |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.24 |
rpoC | 764605 | c.1236G>C | synonymous_variant | 0.27 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.25 |
rpoC | 764620 | c.1251G>C | synonymous_variant | 0.2 |
rpoC | 764621 | c.1252_1254delCTCinsTTG | synonymous_variant | 0.2 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.2 |
rpoC | 764641 | c.1272C>T | synonymous_variant | 0.16 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.14 |
rpoC | 764671 | c.1302G>C | synonymous_variant | 0.1 |
rpoC | 764672 | p.Gln435Glu | missense_variant | 0.1 |
rpoC | 764695 | c.1326T>C | synonymous_variant | 0.1 |
rpoC | 764701 | c.1332C>G | synonymous_variant | 0.1 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777824 | p.Leu219Phe | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474044 | n.387C>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476336 | n.2679C>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476356 | n.2699C>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476357 | n.2700T>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476384 | n.2727G>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476428 | n.2771C>A | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476443 | n.2786G>C | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476455 | n.2798C>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1673553 | p.Asp38Glu | missense_variant | 0.21 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.23 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.18 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.67 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4246527 | p.Ala5Gly | missense_variant | 0.3 |
embB | 4246529 | p.Ser6Arg | missense_variant | 0.33 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.27 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |