Run ID: SRR19303931
Sample name:
Date: 03-04-2023 21:14:16
Number of reads: 583046
Percentage reads mapped: 13.56
Strain: lineage2.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rrs | 1473247 | n.1402C>A | non_coding_transcript_exon_variant | 0.12 | kanamycin, capreomycin, aminoglycosides, amikacin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5803 | c.564A>G | synonymous_variant | 0.25 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8802 | p.Ala501Thr | missense_variant | 0.12 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575675 | p.Arg110Cys | missense_variant | 0.12 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoC | 762863 | c.-507T>G | upstream_gene_variant | 0.2 |
rpoB | 762872 | c.3067_3068delTA | frameshift_variant | 0.22 |
rpoC | 762887 | c.-483G>C | upstream_gene_variant | 0.15 |
rpoB | 762888 | p.His1028Asn | missense_variant | 0.15 |
rpoC | 762899 | c.-471G>C | upstream_gene_variant | 0.21 |
rpoB | 762911 | p.Ile1035Met | missense_variant | 0.21 |
rpoC | 762917 | c.-453C>G | upstream_gene_variant | 0.25 |
rpoC | 762929 | c.-441G>T | upstream_gene_variant | 0.29 |
rpoB | 762939 | p.Met1045Leu | missense_variant | 0.27 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.29 |
rpoC | 762965 | c.-405T>C | upstream_gene_variant | 0.36 |
rpoC | 762971 | c.-399G>T | upstream_gene_variant | 0.25 |
rpoC | 762980 | c.-390T>C | upstream_gene_variant | 0.27 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.2 |
rpoC | 762995 | c.-375G>C | upstream_gene_variant | 0.18 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764521 | c.1152T>C | synonymous_variant | 0.29 |
rpoC | 764536 | c.1167G>C | synonymous_variant | 0.29 |
rpoC | 764537 | p.Pro390Val | missense_variant | 0.29 |
rpoC | 764540 | p.Val391Ile | missense_variant | 0.29 |
rpoC | 764548 | c.1179G>C | synonymous_variant | 0.25 |
rpoC | 764549 | p.Pro394Ala | missense_variant | 0.25 |
rpoC | 764552 | p.Gly395Asn | missense_variant | 0.29 |
rpoC | 764557 | p.Asn396Lys | missense_variant | 0.29 |
rpoC | 764566 | c.1197C>G | synonymous_variant | 0.29 |
rpoC | 764575 | c.1206T>C | synonymous_variant | 0.29 |
rpoC | 764576 | p.Ser403Ala | missense_variant | 0.29 |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.25 |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.29 |
rpoC | 764585 | p.Leu406Ile | missense_variant | 0.47 |
rpoC | 764605 | c.1236G>C | synonymous_variant | 0.7 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.73 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.62 |
rpoC | 764635 | c.1266C>G | synonymous_variant | 0.5 |
rpoC | 764638 | c.1269C>T | synonymous_variant | 0.5 |
rpoC | 764644 | c.1275G>C | synonymous_variant | 0.58 |
rpoC | 764650 | c.1281G>A | synonymous_variant | 0.59 |
rpoC | 764656 | c.1287C>G | synonymous_variant | 0.54 |
rpoC | 764668 | c.1299C>T | synonymous_variant | 0.54 |
rpoC | 764676 | p.Leu436Arg | missense_variant | 0.46 |
rpoC | 764677 | c.1309_1311delAAG | conservative_inframe_deletion | 0.5 |
rpoC | 764705 | p.Leu446Lys | missense_variant | 0.52 |
rpoC | 764719 | c.1350G>A | synonymous_variant | 0.48 |
rpoC | 764858 | c.1489T>C | synonymous_variant | 0.15 |
rpoC | 764869 | c.1500C>T | synonymous_variant | 0.14 |
rpoC | 764872 | c.1503A>G | synonymous_variant | 0.14 |
rpoC | 764875 | c.1506C>G | synonymous_variant | 0.15 |
rpoC | 764887 | c.1518G>C | synonymous_variant | 0.14 |
rpoC | 764888 | c.1519_1521delTTGinsCTC | synonymous_variant | 0.15 |
rpoC | 764902 | c.1533C>G | synonymous_variant | 0.16 |
rpoC | 764911 | c.1542A>G | synonymous_variant | 0.16 |
rpoC | 764913 | p.Met515Lys | missense_variant | 0.16 |
rpoC | 764917 | c.1548G>C | synonymous_variant | 0.15 |
rpoC | 764918 | p.Val517Ile | missense_variant | 0.15 |
rpoC | 764932 | c.1563C>G | synonymous_variant | 0.18 |
rpoC | 764935 | c.1566T>C | synonymous_variant | 0.18 |
rpoC | 764948 | c.1579_1581delTTGinsCTC | synonymous_variant | 0.19 |
rpoC | 764953 | c.1584G>C | synonymous_variant | 0.19 |
rpoC | 764957 | p.Glu530Thr | missense_variant | 0.19 |
rpoC | 764962 | c.1593G>A | synonymous_variant | 0.19 |
rpoC | 764968 | c.1599T>C | synonymous_variant | 0.22 |
rpoC | 764983 | c.1614T>C | synonymous_variant | 0.2 |
rpoC | 766645 | p.Glu1092Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302751 | c.-180G>A | upstream_gene_variant | 0.13 |
fbiC | 1303845 | c.915C>T | synonymous_variant | 0.18 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471778 | n.-68G>A | upstream_gene_variant | 0.18 |
rrs | 1472089 | n.244C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472101 | n.256G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472108 | n.263C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472130 | n.285G>C | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472135 | n.290C>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472138 | n.293C>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472251 | n.406G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472256 | n.411T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472517 | n.672T>C | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472545 | n.700A>G | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472555 | n.710C>T | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.82 |
rrs | 1472572 | n.727T>C | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472573 | n.728C>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472596 | n.751G>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472599 | n.754G>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472648 | n.803G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472694 | n.849C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472697 | n.852T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472707 | n.862A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472714 | n.869A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472716 | n.871C>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472887 | n.1042G>C | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472982 | n.1137G>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.91 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.89 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.88 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.88 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.87 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.87 |
rrs | 1473044 | n.1199C>G | non_coding_transcript_exon_variant | 0.9 |
rrs | 1473051 | n.1206T>C | non_coding_transcript_exon_variant | 0.87 |
rrs | 1473053 | n.1208T>G | non_coding_transcript_exon_variant | 0.86 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.84 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.76 |
rrs | 1473070 | n.1225G>A | non_coding_transcript_exon_variant | 0.76 |
rrs | 1473080 | n.1235C>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.63 |
rrs | 1473093 | n.1248C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473200 | n.1355A>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473202 | n.1357C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473270 | n.1425G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473288 | n.1443C>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474249 | n.592G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474269 | n.612C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474476 | n.819C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474488 | n.831G>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474496 | n.839C>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474497 | n.840G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474506 | n.849C>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474507 | n.850G>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474516 | n.859C>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474529 | n.872A>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474530 | n.873G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474537 | n.880G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474539 | n.882C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474540 | n.883T>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474558 | n.901G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474584 | n.927C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474749 | n.1092C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476299 | n.2642C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476428 | n.2771C>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476711 | n.3054G>A | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1674160 | p.Gly241Ser | missense_variant | 0.12 |
rpsA | 1834177 | c.636A>C | synonymous_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 | 2168639 | c.1974T>A | synonymous_variant | 0.14 |
PPE35 | 2169219 | p.Leu465Pro | missense_variant | 0.29 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289496 | c.-255G>A | upstream_gene_variant | 0.14 |
folC | 2747559 | p.Ala14Thr | missense_variant | 0.13 |
pepQ | 2859586 | p.Arg278His | missense_variant | 0.13 |
Rv2752c | 3064731 | p.Leu487Phe | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612208 | c.909G>A | synonymous_variant | 0.11 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiA | 3641125 | p.Ala195Thr | missense_variant | 0.12 |
fbiB | 3641705 | c.171G>A | synonymous_variant | 1.0 |
rpoA | 3878265 | c.243G>A | synonymous_variant | 0.17 |
clpC1 | 4040045 | c.660C>G | synonymous_variant | 0.29 |
embC | 4240190 | p.Pro110Ser | missense_variant | 0.18 |
embC | 4241945 | p.Arg695Gly | missense_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4249621 | c.3108G>T | synonymous_variant | 1.0 |
aftB | 4267397 | c.1440G>A | synonymous_variant | 0.15 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4268336 | c.501C>T | synonymous_variant | 0.22 |
aftB | 4268868 | c.-32G>T | upstream_gene_variant | 0.15 |
ethR | 4326574 | c.-975G>A | upstream_gene_variant | 0.13 |
ethR | 4326625 | c.-924G>A | upstream_gene_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |