Run ID: ERR4812968
Sample name:
Date: 01-04-2023 12:27:00
Number of reads: 462081
Percentage reads mapped: 51.13
Strain: lineage4.3.3
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761110 | p.Asp435Val | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.95 | isoniazid |
pncA | 2289090 | p.His51Arg | missense_variant | 0.2 | pyrazinamide |
pncA | 2289213 | p.Gln10Arg | missense_variant | 0.85 | pyrazinamide |
embB | 4247469 | p.Tyr319Ser | missense_variant | 0.92 | ethambutol |
gid | 4407952 | p.Pro84Leu | missense_variant | 0.96 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5507 | p.Ala90Thr | missense_variant | 0.11 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 762211 | p.Pro802Arg | missense_variant | 0.11 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 766487 | p.Pro1040Ala | missense_variant | 0.23 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.12 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801258 | c.450C>A | synonymous_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472130 | n.285G>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472135 | n.290C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472138 | n.293C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.15 |
fabG1 | 1674094 | p.Gly219Arg | missense_variant | 0.2 |
rpsA | 1834985 | c.1445dupG | frameshift_variant&stop_lost&splice_region_variant | 0.83 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168998 | p.Ile539Val | missense_variant | 1.0 |
PPE35 | 2169006 | p.Ser536Leu | missense_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
ahpC | 2726728 | p.Arg179His | missense_variant | 0.22 |
folC | 2746149 | p.Arg484Cys | missense_variant | 0.12 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3338978 | c.-140C>T | upstream_gene_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474047 | p.Ser14Leu | missense_variant | 0.11 |
fbiB | 3641789 | c.255G>T | synonymous_variant | 0.22 |
alr | 3841433 | c.-13G>A | upstream_gene_variant | 0.11 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038434 | c.2271G>T | synonymous_variant | 0.13 |
panD | 4044140 | p.Asp48Tyr | missense_variant | 0.18 |
embC | 4242182 | p.Ala774Ser | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246235 | c.-279G>A | upstream_gene_variant | 0.14 |
embA | 4246253 | p.Ile1007Met | missense_variant | 0.22 |
embB | 4248613 | c.2100C>A | synonymous_variant | 0.12 |
ubiA | 4269058 | p.Ile259Thr | missense_variant | 0.13 |
ubiA | 4269565 | p.Arg90Gln | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |