Run ID: SRR1791725
Sample name:
Date: 03-04-2023 18:25:59
Number of reads: 1867134
Percentage reads mapped: 92.83
Strain: La1.8.1
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 |
La1.8.1 | 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 | 9217 | p.Asp639Ala | missense_variant | 0.95 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763058 | c.-312C>G | upstream_gene_variant | 0.12 |
rpoC | 763226 | c.-144A>G | upstream_gene_variant | 0.13 |
rpoC | 763238 | c.-132T>C | upstream_gene_variant | 0.12 |
rpoC | 764293 | c.924G>C | synonymous_variant | 0.13 |
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 |
fbiC | 1304559 | p.Glu543Asp | missense_variant | 0.27 |
fbiC | 1305494 | c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT | frameshift_variant&stop_lost&splice_region_variant | 0.27 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471985 | n.140T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1471986 | n.141C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472029 | n.184C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472041 | n.196C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472042 | n.197T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472053 | n.211_212delGC | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472061 | n.216A>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472075 | n.230A>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472108 | n.263C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472438 | n.593T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472446 | n.601T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472452 | n.607G>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472456 | n.611T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472464 | n.619A>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472489 | n.644A>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472498 | n.653C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472683 | n.838_839insTA | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473111 | n.1266A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474710 | n.1053T>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474711 | n.1054G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474713 | n.1056T>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474715 | n.1058_1059insC | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474753 | n.1096A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475120 | n.1463G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475315 | n.1658A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475355 | n.1698C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475916 | n.2259C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475995 | n.2338G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475997 | n.2340A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476033 | n.2376T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476034 | n.2377C>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476035 | n.2378G>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476044 | n.2387T>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476045 | n.2388G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476049 | n.2392C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476086 | n.2429G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476088 | n.2431A>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476103 | n.2446C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476108 | n.2451T>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476110 | n.2453G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476115 | n.2458T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476131 | n.2474C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476246 | n.2589G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476256 | n.2599A>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476262 | n.2605G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476529 | n.2872A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476583 | n.2926G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.12 |
rpsA | 1834261 | c.720A>G | synonymous_variant | 0.12 |
rpsA | 1834264 | c.723G>C | synonymous_variant | 0.13 |
rpsA | 1834297 | c.756C>T | synonymous_variant | 0.13 |
rpsA | 1834303 | c.762T>G | synonymous_variant | 0.13 |
rpsA | 1834306 | c.765T>C | synonymous_variant | 0.13 |
rpsA | 1834348 | c.807T>C | synonymous_variant | 0.14 |
rpsA | 1834366 | c.825A>G | synonymous_variant | 0.14 |
rpsA | 1834375 | c.834G>C | synonymous_variant | 0.13 |
rpsA | 1834378 | c.837T>C | synonymous_variant | 0.13 |
rpsA | 1834420 | c.879C>T | synonymous_variant | 0.12 |
rpsA | 1834423 | c.882G>C | synonymous_variant | 0.12 |
rpsA | 1834451 | c.910T>C | synonymous_variant | 0.13 |
rpsA | 1834456 | c.915T>G | synonymous_variant | 0.13 |
rpsA | 1834465 | c.924T>C | synonymous_variant | 0.12 |
rpsA | 1834468 | c.927A>G | synonymous_variant | 0.12 |
rpsA | 1834489 | c.948T>C | synonymous_variant | 0.12 |
rpsA | 1834859 | p.Ala440Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102193 | p.Arg284Trp | 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 | 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 | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2518636 | c.522C>T | synonymous_variant | 0.13 |
kasA | 2518642 | c.528A>G | synonymous_variant | 0.13 |
kasA | 2518651 | c.537C>G | synonymous_variant | 0.12 |
kasA | 2518672 | c.558G>C | synonymous_variant | 0.13 |
kasA | 2518684 | c.570C>G | synonymous_variant | 0.13 |
kasA | 2518688 | p.Val192Phe | missense_variant | 0.13 |
kasA | 2518696 | c.582C>G | synonymous_variant | 0.13 |
kasA | 2518705 | c.591T>G | synonymous_variant | 0.15 |
kasA | 2518714 | c.600A>C | synonymous_variant | 0.14 |
kasA | 2518715 | p.Pro201Gly | missense_variant | 0.14 |
kasA | 2518739 | p.Ala209Thr | missense_variant | 0.14 |
kasA | 2518747 | c.633C>G | synonymous_variant | 0.12 |
eis | 2715125 | p.Thr70Ala | missense_variant | 1.0 |
folC | 2747226 | c.373C>A | synonymous_variant | 0.41 |
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 |
rpoA | 3878630 | c.-124delC | upstream_gene_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 | 4244220 | c.988C>T | synonymous_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 |
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 |
fbiC | 1305494 | c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN | frameshift_variant&stop_lost&splice_region_variant | 1.0 |