Run ID: ERR1200622
Sample name:
Date: 13-08-2022 02:32:07
Number of reads: 9925884
Percentage reads mapped: 96.15
Strain: La1.3
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
La1 | M.bovis | None | None | 1.0 |
La1.3 | 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 |
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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575309 | c.-39C>G | upstream_gene_variant | 0.24 |
ccsA | 620748 | c.858T>G | synonymous_variant | 0.19 |
rpoB | 761285 | c.1479G>C | synonymous_variant | 0.24 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.14 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764725 | p.Phe452Leu | missense_variant | 0.21 |
rpoC | 764751 | p.Val461Gly | missense_variant | 0.29 |
rpoC | 765751 | c.2382C>T | synonymous_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 |
rpsL | 781402 | c.-158A>G | upstream_gene_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
Rv1258c | 1406750 | c.591C>A | synonymous_variant | 0.15 |
embR | 1417233 | c.115C>T | synonymous_variant | 0.18 |
rrs | 1471658 | n.-188T>G | upstream_gene_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473343 | n.1498G>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473360 | n.1515T>G | non_coding_transcript_exon_variant | 0.32 |
rrl | 1474380 | n.723G>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476408 | n.2751G>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476728 | n.3071T>C | non_coding_transcript_exon_variant | 1.0 |
inhA | 1674892 | p.Asn231Asp | missense_variant | 0.22 |
rpsA | 1834859 | p.Ala440Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918069 | p.Thr44Pro | missense_variant | 0.35 |
ndh | 2101850 | p.Val398Gly | missense_variant | 0.18 |
ndh | 2102891 | p.Phe51Ser | missense_variant | 0.14 |
ndh | 2103147 | c.-106delT | upstream_gene_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 |
katG | 2156465 | c.-354C>T | upstream_gene_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.99 |
PPE35 | 2168011 | p.Ser868Arg | missense_variant | 1.0 |
PPE35 | 2168814 | c.1798dupA | frameshift_variant | 0.98 |
PPE35 | 2169379 | p.Phe412Val | missense_variant | 0.2 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2518891 | c.777C>A | synonymous_variant | 0.17 |
kasA | 2519305 | c.1191A>G | synonymous_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.18 |
ahpC | 2726756 | c.564C>G | synonymous_variant | 0.18 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.18 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.99 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 |
Rv3083 | 3448929 | p.Tyr142* | stop_gained | 0.16 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474427 | p.Val141Ile | missense_variant | 1.0 |
fprA | 3474684 | c.678T>C | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fprA | 3475280 | p.Val425Gly | missense_variant | 0.23 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.2 |
alr | 3841504 | c.-84C>G | upstream_gene_variant | 0.15 |
rpoA | 3877766 | p.Ala248Pro | missense_variant | 0.2 |
rpoA | 3878630 | c.-124delC | upstream_gene_variant | 1.0 |
ddn | 3987013 | p.Gly57Ala | missense_variant | 0.19 |
clpC1 | 4038403 | c.2302T>C | synonymous_variant | 1.0 |
clpC1 | 4039363 | p.Ala448Pro | missense_variant | 0.17 |
clpC1 | 4039680 | p.Phe342Ser | missense_variant | 0.22 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.32 |
embC | 4240646 | p.Phe262Val | missense_variant | 0.16 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241056 | c.1194C>G | synonymous_variant | 0.19 |
embC | 4241456 | p.Ala532Pro | missense_variant | 0.32 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.17 |
embA | 4242970 | c.-263C>T | upstream_gene_variant | 1.0 |
embA | 4243977 | p.Ala249Pro | missense_variant | 0.25 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embA | 4244375 | c.1143C>G | synonymous_variant | 0.17 |
embA | 4244895 | p.Thr555Ala | missense_variant | 1.0 |
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 | 4248725 | p.Ser738Ala | missense_variant | 0.21 |
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 | 4327672 | c.-199G>A | upstream_gene_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |
gid | 4408329 | c.-127C>G | upstream_gene_variant | 0.24 |