Run ID: ERR6140806
Sample name:
Date: 02-04-2023 01:44:24
Number of reads: 929098
Percentage reads mapped: 37.93
Strain: La1.8.2
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
La1 | M.bovis | None | None | 1.0 |
La1.8 | M.bovis | None | None | 1.0 |
La1.8.2 | M.bovis | None | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
pncA | 2289073 | p.His57Asp | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
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 |
gyrB | 6969 | p.Asp577Val | missense_variant | 0.12 |
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 | 0.97 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9647 | c.2346C>G | synonymous_variant | 0.18 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576113 | p.Arg256Gly | missense_variant | 0.4 |
rpoB | 759912 | p.Ala36Thr | missense_variant | 0.12 |
rpoB | 762141 | p.Asp779Tyr | missense_variant | 0.14 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764367 | p.Gly333Ala | missense_variant | 0.33 |
rpoC | 764537 | p.Pro390Ala | missense_variant | 0.22 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776063 | c.2418C>T | synonymous_variant | 0.2 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776197 | p.Ala762Thr | missense_variant | 0.12 |
mmpL5 | 779193 | c.-713G>A | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
fbiC | 1303535 | p.Ser202Leu | missense_variant | 0.15 |
embR | 1416390 | c.958C>T | synonymous_variant | 1.0 |
atpE | 1460986 | c.-59A>C | upstream_gene_variant | 0.12 |
atpE | 1461173 | c.129C>T | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1476101 | n.2444C>T | non_coding_transcript_exon_variant | 1.0 |
inhA | 1674141 | c.-61T>C | upstream_gene_variant | 0.14 |
inhA | 1674627 | c.426T>C | synonymous_variant | 0.11 |
rpsA | 1834859 | p.Ala440Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102991 | p.Val18Met | missense_variant | 1.0 |
ndh | 2103173 | c.-132delG | upstream_gene_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2154935 | p.Ile393Val | missense_variant | 0.1 |
katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
katG | 2156025 | c.87C>A | synonymous_variant | 0.97 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168011 | p.Ser868Arg | missense_variant | 1.0 |
PPE35 | 2168216 | c.2397C>T | synonymous_variant | 0.2 |
PPE35 | 2168319 | p.Thr765Ile | missense_variant | 1.0 |
PPE35 | 2168814 | c.1798dupA | frameshift_variant | 1.0 |
PPE35 | 2169565 | p.Gly350Ser | missense_variant | 0.14 |
PPE35 | 2170159 | p.Ala152Ser | missense_variant | 0.14 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289948 | c.-707C>A | upstream_gene_variant | 0.13 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2519071 | p.Asp319Glu | missense_variant | 0.33 |
eis | 2715125 | p.Thr70Ala | missense_variant | 1.0 |
folC | 2747380 | c.219C>T | synonymous_variant | 0.16 |
folC | 2747631 | c.-33C>T | upstream_gene_variant | 1.0 |
thyX | 3067420 | p.Pro176Ser | missense_variant | 0.13 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087029 | p.Leu70Phe | missense_variant | 0.15 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 |
Rv3083 | 3448946 | p.Gly148Asp | missense_variant | 0.17 |
fprA | 3473824 | c.-183C>T | upstream_gene_variant | 0.12 |
fprA | 3473825 | c.-181delC | upstream_gene_variant | 0.12 |
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 |
Rv3236c | 3612849 | c.268C>T | synonymous_variant | 0.14 |
fbiA | 3640427 | c.-116T>C | upstream_gene_variant | 0.18 |
fbiB | 3642815 | c.1281A>G | synonymous_variant | 0.11 |
rpoA | 3878630 | c.-124delC | upstream_gene_variant | 1.0 |
clpC1 | 4038403 | c.2302T>C | synonymous_variant | 1.0 |
embC | 4240411 | c.549G>C | synonymous_variant | 0.25 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241696 | p.Ala612Thr | missense_variant | 0.17 |
embC | 4242029 | p.Leu723Val | missense_variant | 1.0 |
embA | 4242337 | c.-896C>T | upstream_gene_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242970 | c.-263C>T | upstream_gene_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embA | 4244329 | p.Ala366Gly | missense_variant | 0.14 |
embB | 4246551 | p.Asn13Ser | missense_variant | 1.0 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4248319 | c.1806A>C | synonymous_variant | 0.17 |
embB | 4248328 | c.1815G>C | synonymous_variant | 0.2 |
embB | 4249175 | p.Val888Leu | missense_variant | 0.11 |
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 |
ethA | 4326585 | p.Pro297Thr | missense_variant | 0.12 |
ethA | 4327385 | p.Lys30Arg | missense_variant | 0.1 |
whiB6 | 4338205 | p.Val106Gly | missense_variant | 0.4 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
embR | 1416583 | c.-2382_764del | frameshift_variant&start_lost | 1.0 |