Run ID: SRR6045604
Sample name:
Date: 04-04-2023 12:02:12
Number of reads: 550307
Percentage reads mapped: 99.36
Strain: La3
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
La3 | M.orygis | None | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5157 | c.-83C>T | upstream_gene_variant | 0.17 |
gyrB | 5336 | p.Tyr33His | missense_variant | 0.12 |
gyrB | 5480 | p.Gly81Ser | missense_variant | 0.12 |
gyrB | 5516 | p.Ile93Val | missense_variant | 1.0 |
gyrB | 6109 | c.870G>A | synonymous_variant | 1.0 |
gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
gyrB | 6717 | p.Ile493Thr | missense_variant | 1.0 |
gyrA | 7190 | c.-112C>T | upstream_gene_variant | 0.22 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7763 | c.462T>A | synonymous_variant | 0.18 |
gyrA | 7773 | p.Gly158Cys | missense_variant | 0.18 |
gyrA | 8414 | p.Asp371Glu | missense_variant | 0.17 |
gyrA | 8930 | c.1629C>T | synonymous_variant | 1.0 |
gyrA | 9065 | c.1764C>A | synonymous_variant | 0.12 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9239 | c.1938C>T | synonymous_variant | 0.14 |
gyrA | 9269 | c.1968C>T | synonymous_variant | 0.17 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9682 | p.Ala794Glu | missense_variant | 0.14 |
gyrA | 9741 | p.Ala814Ser | missense_variant | 0.18 |
fgd1 | 490661 | c.-122_-121insGCGAGC | upstream_gene_variant | 1.0 |
fgd1 | 491309 | p.Ala176Gly | missense_variant | 0.18 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
fgd1 | 491749 | p.Leu323Phe | missense_variant | 1.0 |
mshA | 575500 | c.153G>T | synonymous_variant | 0.12 |
mshA | 575533 | c.186C>T | synonymous_variant | 0.17 |
mshA | 575593 | c.246G>A | synonymous_variant | 0.17 |
mshA | 575658 | p.Ala104Glu | missense_variant | 0.13 |
mshA | 576205 | c.858G>T | synonymous_variant | 0.15 |
mshA | 576493 | c.1146C>A | synonymous_variant | 0.33 |
ccsA | 619839 | c.-52C>T | upstream_gene_variant | 0.22 |
rpoB | 760081 | p.Asp92Gly | missense_variant | 0.15 |
rpoB | 760095 | p.Met97Val | missense_variant | 0.14 |
rpoB | 760763 | c.957C>A | synonymous_variant | 0.13 |
rpoB | 761891 | c.2085G>T | synonymous_variant | 0.12 |
rpoB | 761899 | p.Asp698Gly | missense_variant | 0.11 |
rpoB | 762352 | c.2557_2562dupGACGAG | conservative_inframe_insertion | 1.0 |
rpoB | 762555 | p.Pro917Ser | missense_variant | 0.17 |
rpoB | 762801 | p.Asp999Asn | missense_variant | 0.67 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoB | 763038 | p.Thr1078Ala | missense_variant | 0.12 |
rpoC | 763490 | p.Pro41Ser | missense_variant | 0.29 |
rpoC | 765252 | p.Ser628Ile | missense_variant | 0.14 |
rpoC | 766503 | p.Pro1045Gln | missense_variant | 0.14 |
rpoC | 767162 | p.Asn1265Asp | missense_variant | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775952 | c.2529G>T | synonymous_variant | 0.15 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776103 | p.Ile793Gly | missense_variant | 0.12 |
mmpL5 | 776105 | c.2376G>C | synonymous_variant | 0.12 |
mmpL5 | 776266 | p.Lys739* | stop_gained | 0.12 |
mmpL5 | 777078 | p.Ile468Asn | missense_variant | 0.18 |
mmpL5 | 777202 | p.Ala427Thr | missense_variant | 0.15 |
mmpL5 | 777496 | p.Leu329Met | missense_variant | 0.14 |
mmpL5 | 777746 | c.735G>T | synonymous_variant | 0.12 |
mmpL5 | 778086 | c.394dupG | frameshift_variant | 1.0 |
mmpL5 | 778219 | p.Asp88Tyr | missense_variant | 0.17 |
mmpL5 | 778279 | p.Ala68Ser | missense_variant | 0.13 |
mmpS5 | 778604 | p.Pro101His | missense_variant | 0.13 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781465 | c.-95G>T | upstream_gene_variant | 0.17 |
rplC | 801029 | p.Gly74Val | missense_variant | 0.12 |
fbiC | 1302743 | c.-188C>G | upstream_gene_variant | 0.18 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
fbiC | 1303016 | p.Val29Gly | missense_variant | 0.29 |
fbiC | 1303223 | p.Cys98Phe | missense_variant | 0.14 |
fbiC | 1303656 | c.726G>A | synonymous_variant | 0.18 |
fbiC | 1304524 | p.Ala532Ser | missense_variant | 0.12 |
Rv1258c | 1407249 | p.Pro31Gln | missense_variant | 0.12 |
embR | 1416435 | p.Ala305Thr | missense_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473226 | n.1381C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475539 | n.1882A>G | non_coding_transcript_exon_variant | 1.0 |
inhA | 1673680 | c.-522C>G | upstream_gene_variant | 1.0 |
fabG1 | 1673693 | p.Leu85Pro | missense_variant | 0.17 |
fabG1 | 1673986 | p.Pro183Thr | missense_variant | 0.18 |
inhA | 1674235 | p.Val12Phe | missense_variant | 0.12 |
inhA | 1674555 | c.354G>A | synonymous_variant | 0.13 |
inhA | 1674696 | c.495G>A | synonymous_variant | 0.12 |
inhA | 1674708 | c.507G>A | synonymous_variant | 0.11 |
rpsA | 1834363 | c.822G>A | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1917975 | c.36C>T | synonymous_variant | 0.2 |
tlyA | 1918274 | p.Asp112Gly | missense_variant | 0.15 |
tlyA | 1918626 | c.687G>A | synonymous_variant | 0.14 |
tlyA | 1918740 | c.801C>A | synonymous_variant | 0.22 |
ndh | 2101913 | p.Ser377Leu | missense_variant | 0.22 |
ndh | 2102531 | p.Leu171Gln | missense_variant | 0.17 |
katG | 2154707 | p.Val469Leu | missense_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168975 | c.1638C>A | synonymous_variant | 0.18 |
PPE35 | 2169279 | c.1312_1333delAACAATGGTGTCTTTTACCGTG | frameshift_variant | 1.0 |
PPE35 | 2169902 | c.711G>C | synonymous_variant | 0.11 |
PPE35 | 2170231 | p.Gln128Glu | missense_variant | 0.11 |
PPE35 | 2170527 | p.Ser29* | stop_gained | 0.17 |
PPE35 | 2170669 | c.-57G>A | upstream_gene_variant | 1.0 |
Rv1979c | 2222063 | p.Arg368Trp | missense_variant | 0.18 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2222738 | p.Gly143Cys | missense_variant | 0.13 |
Rv1979c | 2222883 | c.282C>T | synonymous_variant | 0.2 |
Rv1979c | 2223173 | c.-9C>A | upstream_gene_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289978 | c.-737T>G | upstream_gene_variant | 1.0 |
pncA | 2290233 | c.-992C>A | upstream_gene_variant | 0.17 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2518640 | p.Glu176* | stop_gained | 0.18 |
kasA | 2518832 | p.Gly240Ser | missense_variant | 0.17 |
kasA | 2519131 | c.1017G>T | synonymous_variant | 0.17 |
eis | 2714433 | p.Asn300Lys | missense_variant | 0.12 |
eis | 2715095 | p.Ala80Ser | missense_variant | 0.15 |
eis | 2715291 | c.42G>A | synonymous_variant | 0.17 |
ahpC | 2726378 | c.186T>A | synonymous_variant | 1.0 |
folC | 2746391 | p.Val403Ala | missense_variant | 1.0 |
folC | 2746440 | p.Val387Leu | missense_variant | 0.13 |
ribD | 2987318 | c.480C>A | synonymous_variant | 0.4 |
ribD | 2987538 | p.Val234Met | missense_variant | 0.14 |
Rv2752c | 3065254 | p.Ser313* | stop_gained | 0.29 |
Rv2752c | 3065510 | p.Gly228Ser | missense_variant | 0.15 |
Rv2752c | 3065789 | p.Arg135Trp | missense_variant | 0.12 |
Rv2752c | 3065869 | p.Thr108Asn | missense_variant | 0.12 |
Rv2752c | 3065947 | p.Gly82Ala | missense_variant | 0.13 |
Rv2752c | 3065957 | c.235T>C | synonymous_variant | 0.12 |
Rv2752c | 3066066 | c.126T>C | synonymous_variant | 0.11 |
Rv2752c | 3066090 | c.101delT | frameshift_variant | 0.22 |
Rv2752c | 3066346 | c.-155C>A | upstream_gene_variant | 0.12 |
Rv2752c | 3067009 | c.-818A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3067071 | c.-880G>A | upstream_gene_variant | 0.13 |
thyX | 3067297 | p.Arg217Ser | missense_variant | 0.25 |
thyX | 3067812 | p.Gln45Arg | missense_variant | 1.0 |
thyA | 3074196 | c.276G>T | synonymous_variant | 0.17 |
thyA | 3074641 | c.-170C>T | upstream_gene_variant | 0.29 |
thyA | 3074645 | c.-174T>G | upstream_gene_variant | 0.43 |
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 |
fbiD | 3339454 | p.Leu113Met | missense_variant | 0.12 |
Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 |
Rv3083 | 3449217 | p.Trp238Cys | missense_variant | 0.12 |
Rv3083 | 3449225 | p.Glu241Gly | missense_variant | 0.11 |
Rv3083 | 3449813 | p.Asp437Val | missense_variant | 0.2 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474165 | c.159C>G | synonymous_variant | 0.27 |
fprA | 3475113 | c.1107G>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fprA | 3475323 | c.1317T>C | synonymous_variant | 1.0 |
whiB7 | 3568626 | c.53delT | frameshift_variant | 0.15 |
Rv3236c | 3612694 | c.423T>C | synonymous_variant | 1.0 |
fbiA | 3641218 | p.Val226Ile | missense_variant | 0.2 |
fbiA | 3641222 | p.Pro227His | missense_variant | 0.2 |
fbiA | 3641255 | p.Ala238Glu | missense_variant | 0.25 |
fbiB | 3641542 | p.Gly3Val | missense_variant | 0.17 |
fbiB | 3641584 | p.Val17Ala | missense_variant | 1.0 |
fbiB | 3642444 | p.Ala304Thr | missense_variant | 0.22 |
alr | 3841131 | p.Ala97Glu | missense_variant | 0.13 |
rpoA | 3877966 | p.Thr181Asn | missense_variant | 0.15 |
clpC1 | 4038638 | p.Asp689Glu | missense_variant | 0.22 |
clpC1 | 4038747 | p.Arg653His | missense_variant | 0.12 |
clpC1 | 4039853 | c.852G>A | synonymous_variant | 1.0 |
clpC1 | 4040085 | p.Arg207Leu | missense_variant | 0.17 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.11 |
panD | 4044134 | p.Asp50Asn | missense_variant | 1.0 |
embC | 4240496 | p.Leu212Met | missense_variant | 0.22 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4240992 | p.Ala377Val | missense_variant | 0.22 |
embC | 4241045 | p.Gly395Cys | missense_variant | 0.33 |
embC | 4241644 | c.1782G>T | synonymous_variant | 0.17 |
embC | 4242317 | p.Glu819Lys | missense_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242964 | c.-269C>T | upstream_gene_variant | 0.14 |
embA | 4243243 | p.Asp4Gly | missense_variant | 0.11 |
embA | 4243570 | p.Thr113Met | missense_variant | 0.17 |
embA | 4244154 | p.Thr308Ala | missense_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embA | 4244279 | c.1047G>T | synonymous_variant | 0.25 |
embA | 4244373 | p.Pro381Thr | missense_variant | 0.12 |
embA | 4246392 | p.Trp1054Arg | missense_variant | 0.13 |
embB | 4246516 | c.3G>T | start_lost | 0.12 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4246976 | p.Ala155Pro | missense_variant | 1.0 |
embB | 4247356 | c.843C>T | synonymous_variant | 0.12 |
embB | 4247358 | p.Val282Ala | missense_variant | 0.12 |
embB | 4247374 | p.Phe287Leu | missense_variant | 0.13 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4248852 | p.Leu780Pro | missense_variant | 0.17 |
aftB | 4267983 | p.Arg285His | missense_variant | 0.2 |
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 |
ubiA | 4269864 | c.-31C>T | upstream_gene_variant | 0.15 |
ubiA | 4269870 | c.-37C>T | upstream_gene_variant | 0.12 |
ubiA | 4270015 | c.-182G>T | upstream_gene_variant | 0.4 |
ethA | 4327042 | p.Asp144Asn | missense_variant | 1.0 |
ethA | 4327265 | p.Thr70Ile | missense_variant | 0.12 |
ethR | 4327895 | p.Ser116Leu | missense_variant | 0.12 |
ethR | 4327969 | p.Phe141Val | missense_variant | 0.11 |
ethA | 4328211 | c.-738A>G | upstream_gene_variant | 1.0 |
ethA | 4328213 | c.-740C>G | upstream_gene_variant | 0.11 |
ethA | 4328332 | c.-859G>A | upstream_gene_variant | 0.12 |
whiB6 | 4338269 | p.Gly85Ser | missense_variant | 1.0 |
whiB6 | 4338290 | p.Gly78Trp | missense_variant | 0.14 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407627 | c.576C>T | synonymous_variant | 0.14 |
gid | 4408085 | p.Glu40Lys | missense_variant | 0.12 |