Run ID: ERR9993151
Sample name:
Date: 02-04-2023 14:05:56
Number of reads: 2982153
Percentage reads mapped: 76.67
Strain: lineage4.4.1.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
inhA | 1674263 | p.Ile21Thr | missense_variant | 1.0 | isoniazid, ethionamide |
embB | 4248003 | p.Gln497Arg | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6144 | p.His302Arg | missense_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 | 0.38 |
mshA | 576111 | p.Ala255Gly | missense_variant | 0.21 |
rpoC | 766485 | p.Val1039Ala | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 779459 | p.Tyr157Ser | 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 | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472210 | n.365A>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472222 | n.377G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472229 | n.384C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472953 | n.1108G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472969 | n.1125_1126delCG | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472974 | n.1129A>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472975 | n.1130T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472977 | n.1132G>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473001 | n.1156G>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473002 | n.1157G>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473008 | n.1163C>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473009 | n.1164T>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473020 | n.1175T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
katG | 2156117 | c.-6A>G | upstream_gene_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288937 | p.Ala102Val | missense_variant | 1.0 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 1.0 |
ald | 3086635 | c.-185_-184insA | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
rpoA | 3878630 | c.-123G>C | upstream_gene_variant | 0.26 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243190 | c.-43G>C | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |