Run ID: ERR4553882
Sample name:
Date: 01-04-2023 06:24:01
Number of reads: 1607492
Percentage reads mapped: 99.54
Strain:
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 | 0.96 |
lineage1.2.2.2 | Indo-Oceanic | NA | RD239 | 0.93 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Ala | missense_variant | 0.5 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.92 | rifampicin |
rrs | 1472359 | n.514A>T | non_coding_transcript_exon_variant | 1.0 | streptomycin |
rrs | 1473247 | n.1402C>T | non_coding_transcript_exon_variant | 0.97 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288731 | p.Ala171Thr | missense_variant | 0.94 | pyrazinamide |
embB | 4249512 | p.Met1000Arg | missense_variant | 0.94 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5075 | c.-165C>T | upstream_gene_variant | 0.96 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.67 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491359 | p.Ile193Leu | missense_variant | 0.98 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.3 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.12 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.5 |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.5 |
rpoC | 767011 | c.3642G>C | synonymous_variant | 0.97 |
rpoC | 767123 | p.Val1252Leu | missense_variant | 0.93 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.4 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473817 | n.160T>C | non_coding_transcript_exon_variant | 0.93 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168742 | p.Gly624Asp | missense_variant | 1.0 |
Rv1979c | 2221725 | c.1440T>G | synonymous_variant | 0.93 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.81 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.98 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.18 |
Rv2752c | 3064889 | p.Lys435Glu | missense_variant | 0.96 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.4 |
Rv3083 | 3448391 | c.-113C>T | upstream_gene_variant | 0.96 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.5 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.94 |
alr | 3841568 | c.-148G>A | upstream_gene_variant | 0.86 |
alr | 3841570 | c.-151delA | upstream_gene_variant | 0.8 |
alr | 3841574 | c.-154T>G | upstream_gene_variant | 0.8 |
alr | 3841578 | c.-158G>T | upstream_gene_variant | 0.8 |
alr | 3841582 | c.-162A>G | upstream_gene_variant | 0.8 |
alr | 3841584 | c.-164C>A | upstream_gene_variant | 0.8 |
alr | 3841589 | c.-170delG | upstream_gene_variant | 0.8 |
alr | 3841612 | c.-193_-192insC | upstream_gene_variant | 0.75 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.96 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243218 | c.-15C>G | upstream_gene_variant | 0.93 |
embB | 4246542 | p.Ser10Asn | missense_variant | 0.18 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.53 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.67 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.55 |
ethA | 4326439 | p.Asn345Lys | missense_variant | 0.92 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338635 | c.-114A>C | upstream_gene_variant | 0.55 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.83 |
gid | 4407979 | p.Pro75Leu | missense_variant | 1.0 |