Run ID: ERR4818908
Sample name:
Date: 01-04-2023 15:49:04
Number of reads: 646585
Percentage reads mapped: 99.26
Strain: La1.2.BCG
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
La1 | M.bovis | None | None | 1.0 |
La1.2 | M.bovis | None | None | 1.0 |
La1.2.BCG | M.bovis | BCG | 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 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7914 | p.Leu205Val | missense_variant | 0.15 |
gyrA | 8285 | c.984C>T | synonymous_variant | 1.0 |
gyrA | 8617 | p.Gln439Arg | missense_variant | 0.11 |
gyrA | 8624 | c.1323G>T | synonymous_variant | 1.0 |
gyrA | 8741 | c.1440C>T | synonymous_variant | 1.0 |
gyrA | 9057 | p.Glu586Lys | missense_variant | 0.14 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491189 | c.411delG | frameshift_variant | 0.2 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 759620 | c.-187A>C | upstream_gene_variant | 0.21 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763575 | p.Arg69Pro | missense_variant | 1.0 |
rpoC | 763717 | c.348T>C | synonymous_variant | 0.13 |
rpoC | 764540 | c.1172_1176delTCACC | frameshift_variant | 0.14 |
rpoC | 764547 | p.Gly393Val | missense_variant | 0.12 |
rpoC | 764549 | p.Pro394Thr | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776018 | c.2463G>C | synonymous_variant | 0.11 |
mmpL5 | 776021 | c.2460G>C | synonymous_variant | 0.11 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776694 | p.Val596Gly | missense_variant | 0.13 |
mmpL5 | 776702 | c.1779C>T | synonymous_variant | 0.15 |
mmpL5 | 777164 | c.1317C>T | synonymous_variant | 0.15 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781568 | c.9C>T | synonymous_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
Rv1258c | 1406135 | c.1206A>G | synonymous_variant | 0.12 |
Rv1258c | 1407020 | c.321C>T | synonymous_variant | 0.18 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
fabG1 | 1673560 | p.Lys41Leu | missense_variant | 0.18 |
rpsA | 1833690 | p.Glu50Gly | missense_variant | 0.15 |
rpsA | 1834561 | c.1020C>T | synonymous_variant | 0.15 |
rpsA | 1834859 | p.Ala440Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102106 | p.Gly313Arg | missense_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 | 2155664 | p.Pro150Ser | missense_variant | 0.15 |
katG | 2156025 | c.87C>A | synonymous_variant | 1.0 |
katG | 2156465 | c.-354C>T | upstream_gene_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.17 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.17 |
PPE35 | 2168011 | p.Ser868Arg | missense_variant | 1.0 |
PPE35 | 2168814 | c.1798dupA | frameshift_variant | 1.0 |
PPE35 | 2168877 | p.Phe579Ser | missense_variant | 0.13 |
PPE35 | 2168920 | p.Val565Phe | missense_variant | 1.0 |
PPE35 | 2169110 | c.1503T>C | synonymous_variant | 0.18 |
PPE35 | 2169293 | c.1320T>C | synonymous_variant | 0.12 |
PPE35 | 2169308 | c.1305C>T | synonymous_variant | 0.14 |
PPE35 | 2169488 | c.1125G>C | synonymous_variant | 0.17 |
PPE35 | 2169491 | c.1122T>C | synonymous_variant | 0.17 |
PPE35 | 2169587 | c.1026G>A | synonymous_variant | 0.12 |
PPE35 | 2170392 | p.Gly74Ala | missense_variant | 0.18 |
PPE35 | 2170412 | c.201G>A | synonymous_variant | 0.18 |
PPE35 | 2170415 | c.198A>G | synonymous_variant | 0.18 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.25 |
folC | 2746860 | p.Ala247Thr | missense_variant | 0.14 |
thyX | 3068020 | c.-75G>A | upstream_gene_variant | 0.15 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087017 | c.198C>T | synonymous_variant | 0.29 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
Rv3083 | 3448745 | p.Ile81Ser | missense_variant | 1.0 |
Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 |
Rv3083 | 3449940 | c.1437T>C | synonymous_variant | 0.2 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474017 | p.Tyr4Phe | missense_variant | 0.17 |
fprA | 3474427 | p.Val141Ile | missense_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fprA | 3475202 | p.Pro399Leu | missense_variant | 0.29 |
fbiB | 3642438 | p.Thr302Ala | missense_variant | 0.12 |
alr | 3840719 | c.702A>G | synonymous_variant | 0.12 |
rpoA | 3878630 | c.-124delC | upstream_gene_variant | 1.0 |
clpC1 | 4038403 | c.2302T>C | synonymous_variant | 1.0 |
clpC1 | 4038574 | p.Asn711Asp | missense_variant | 0.17 |
clpC1 | 4039018 | p.Ser563Ala | missense_variant | 0.14 |
clpC1 | 4039022 | c.1683A>G | synonymous_variant | 0.15 |
clpC1 | 4039565 | c.1140G>T | synonymous_variant | 0.14 |
clpC1 | 4039583 | c.1122C>T | synonymous_variant | 0.12 |
clpC1 | 4039661 | c.1044T>C | synonymous_variant | 0.11 |
clpC1 | 4039691 | c.1014G>C | synonymous_variant | 0.11 |
clpC1 | 4039714 | p.Tyr331His | missense_variant | 0.21 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.17 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4242029 | c.2167C>T | synonymous_variant | 1.0 |
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 |
embB | 4245695 | c.-819C>A | upstream_gene_variant | 0.12 |
embB | 4246551 | p.Asn13Ser | missense_variant | 1.0 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4247173 | c.660G>A | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4247752 | c.1239G>T | synonymous_variant | 0.12 |
aftB | 4267858 | p.Ile327Val | missense_variant | 1.0 |
aftB | 4269351 | c.-515C>T | upstream_gene_variant | 1.0 |
ubiA | 4269365 | p.Tyr157His | missense_variant | 0.14 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ubiA | 4269689 | p.Val49Ile | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
Rv1979c | 2221058 | c.-8682_*660del | transcript_ablation | 1.0 |