Run ID: ERR751865
Sample name:
Date: 02-04-2023 04:47:17
Number of reads: 4086691
Percentage reads mapped: 89.25
Strain: lineage1.1.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 1.0 |
lineage1.1.1 | Indo-Oceanic | EAI4;EAI5 | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_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 |
rpoB | 760386 | p.His194Tyr | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
rpoC | 765171 | p.Pro601Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 778116 | p.His122Arg | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 0.98 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.98 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472122 | n.277G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472128 | n.283G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472215 | n.370A>G | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472234 | n.389T>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472596 | n.751G>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472598 | n.753A>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472614 | n.769G>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.58 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473147 | n.1302G>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473164 | n.1319C>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1473172 | n.1327T>C | non_coding_transcript_exon_variant | 0.32 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1473191 | n.1346C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1473206 | n.1361G>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1473226 | n.1381C>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473249 | n.1404T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473255 | n.1410A>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473260 | n.1415G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474709 | n.1052G>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474902 | n.1245T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476572 | n.2915G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.16 |
rpsA | 1834319 | p.Val260Ile | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.22 |
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 |
eis | 2714721 | p.Cys204Trp | missense_variant | 0.51 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
ahpC | 2726070 | c.-123G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 0.98 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fprA | 3475302 | c.1296C>T | synonymous_variant | 1.0 |
rpoA | 3878630 | c.-124delC | upstream_gene_variant | 1.0 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.17 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 |
embA | 4244096 | c.864C>T | synonymous_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
ubiA | 4269152 | p.Ala228Ser | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4327483 | c.-10G>A | upstream_gene_variant | 1.0 |
whiB6 | 4338242 | p.Gln94Glu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |