Run ID: ERR4814355
Sample name:
Date: 20-10-2023 07:31:36
Number of reads: 4436927
Percentage reads mapped: 95.19
Strain: La1.6
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | R | pncA p.His57Asp (1.00) |
Streptomycin | R | rrs n.888G>A (0.76) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
La1 | M.bovis | None | None | 1.0 |
La1.6 | M.bovis | None | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.76 | streptomycin |
pncA | 2289073 | p.His57Asp | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5724 | p.Ala162Val | missense_variant | 1.0 |
gyrB | 5752 | c.513G>A | synonymous_variant | 1.0 |
gyrA | 6406 | c.-896C>T | upstream_gene_variant | 1.0 |
gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
gyrA | 7042 | c.-260C>T | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8285 | c.984C>T | synonymous_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9217 | p.Asp639Ala | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.99 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
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 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
embR | 1416489 | p.Gln287* | stop_gained | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472108 | n.263C>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472122 | n.277G>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472123 | n.278A>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472124 | n.279C>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472155 | n.310C>T | non_coding_transcript_exon_variant | 0.81 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.76 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472581 | n.736A>C | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.68 |
rrs | 1472584 | n.739A>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.68 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.68 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473005 | n.1160C>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.42 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473130 | n.1285G>A | non_coding_transcript_exon_variant | 0.61 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.57 |
rrs | 1473172 | n.1327T>G | non_coding_transcript_exon_variant | 0.48 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.58 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1473276 | n.1431A>C | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473277 | n.1432G>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476429 | n.2772A>T | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.65 |
rpsA | 1834859 | p.Ala440Thr | missense_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918536 | c.597T>C | synonymous_variant | 1.0 |
ndh | 2103173 | c.-132delG | upstream_gene_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
katG | 2156025 | c.87C>A | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168011 | p.Ser868Arg | missense_variant | 1.0 |
PPE35 | 2168319 | p.Thr765Ile | missense_variant | 1.0 |
PPE35 | 2168814 | c.1798dupA | frameshift_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223062 | p.Thr35Ala | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
folC | 2746245 | p.Ala452Thr | missense_variant | 1.0 |
ribD | 2987615 | c.777A>G | stop_lost&splice_region_variant | 1.0 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474427 | p.Val141Ile | missense_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
clpC1 | 4038403 | c.2302T>C | synonymous_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242970 | c.-263C>T | upstream_gene_variant | 1.0 |
embA | 4243763 | c.531G>C | synonymous_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embB | 4246551 | p.Asn13Ser | missense_variant | 0.99 |
embB | 4246663 | c.150G>A | synonymous_variant | 1.0 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4246974 | p.His154Arg | missense_variant | 0.99 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4247791 | c.1278C>T | synonymous_variant | 1.0 |
aftB | 4267858 | p.Ile327Val | missense_variant | 1.0 |
aftB | 4269351 | c.-515C>T | upstream_gene_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |