Run ID: SRR6982400
Sample name:
Date: 04-04-2023 18:36:19
Number of reads: 683050
Percentage reads mapped: 43.84
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 |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7440 | p.Gly47Trp | missense_variant | 0.17 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490836 | c.54C>T | synonymous_variant | 0.12 |
fgd1 | 490870 | p.His30Asn | missense_variant | 0.13 |
fgd1 | 491139 | p.Glu119Asp | missense_variant | 0.12 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575499 | c.154delG | frameshift_variant | 0.18 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576253 | c.906G>T | synonymous_variant | 0.33 |
mshA | 576410 | p.Phe355Leu | missense_variant | 0.12 |
mshA | 576586 | c.1239G>T | synonymous_variant | 0.22 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 759887 | c.81C>A | synonymous_variant | 0.12 |
rpoB | 762320 | c.2514C>G | synonymous_variant | 0.11 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764532 | p.Gly388Ala | missense_variant | 0.14 |
rpoC | 764987 | p.Gln540Lys | missense_variant | 0.12 |
rpoC | 765214 | c.1845G>A | synonymous_variant | 0.12 |
rpoC | 766421 | p.Gly1018Cys | missense_variant | 0.13 |
rpoC | 766542 | p.Gly1058Val | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776121 | p.Ile787Thr | missense_variant | 0.11 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 777314 | p.Trp389* | stop_gained | 0.25 |
mmpL5 | 777371 | c.1110C>A | synonymous_variant | 0.14 |
mmpL5 | 777727 | p.Phe252Leu | missense_variant | 0.12 |
mmpL5 | 778284 | p.Pro66His | missense_variant | 0.14 |
mmpR5 | 779204 | p.Arg72Gln | missense_variant | 0.14 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303850 | p.Pro307His | missense_variant | 0.17 |
fbiC | 1303992 | p.Trp354Cys | missense_variant | 0.15 |
Rv1258c | 1406304 | p.Gly346Val | missense_variant | 0.11 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471878 | n.33C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472122 | n.277G>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.66 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.66 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472215 | n.370A>G | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472234 | n.389T>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472262 | n.417C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472505 | n.660G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.49 |
rrs | 1472596 | n.751G>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472598 | n.753A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472614 | n.769G>T | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472669 | n.824_825insTAGG | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.43 |
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 | 0.64 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473054 | n.1209C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473191 | n.1346C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473206 | n.1361G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473226 | n.1381C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473249 | n.1404T>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473255 | n.1410A>G | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473260 | n.1415G>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473281 | n.1436C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473282 | n.1437C>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473288 | n.1443C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473290 | n.1445C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473291 | n.1446G>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473296 | n.1451G>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473297 | n.1452G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473327 | n.1482A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473328 | n.1483C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473352 | n.1507C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1473404 | n.-254C>A | upstream_gene_variant | 0.13 |
rrl | 1474839 | n.1182C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474892 | n.1235G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.38 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476179 | n.2522C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476268 | n.2611A>T | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476275 | n.2618T>A | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476279 | n.2622G>A | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.87 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.9 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.87 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476572 | n.2915G>A | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476743 | n.3086A>G | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673473 | p.Pro12Thr | missense_variant | 0.15 |
fabG1 | 1673494 | p.Leu19Met | missense_variant | 0.12 |
inhA | 1674466 | p.Asp89Asn | missense_variant | 0.22 |
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 |
katG | 2155040 | p.Gly358Arg | missense_variant | 0.2 |
katG | 2155782 | c.327_329delTGC | disruptive_inframe_deletion | 0.15 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289370 | c.-129C>A | upstream_gene_variant | 0.12 |
pncA | 2289771 | c.-530C>A | upstream_gene_variant | 0.17 |
kasA | 2518389 | c.277_278delCA | frameshift_variant | 0.12 |
kasA | 2518873 | c.759C>T | synonymous_variant | 0.15 |
kasA | 2518954 | c.840C>A | synonymous_variant | 0.12 |
eis | 2714829 | c.504C>A | synonymous_variant | 0.18 |
folC | 2747044 | c.554dupA | frameshift_variant | 0.25 |
folC | 2747101 | c.498G>T | synonymous_variant | 0.33 |
pepQ | 2859605 | p.Gly272Trp | missense_variant | 0.13 |
Rv2752c | 3064674 | c.1518C>A | synonymous_variant | 0.13 |
Rv2752c | 3065068 | p.His375Arg | missense_variant | 0.13 |
thyX | 3067342 | p.Glu202* | stop_gained | 0.14 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087377 | c.559delG | frameshift_variant | 0.18 |
fbiD | 3339378 | c.261C>T | synonymous_variant | 0.17 |
Rv3083 | 3448606 | p.Leu35Met | missense_variant | 0.14 |
Rv3083 | 3449105 | p.Pro201Arg | missense_variant | 0.33 |
Rv3083 | 3449573 | p.Arg357Pro | missense_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474618 | p.Gln204His | missense_variant | 0.17 |
Rv3236c | 3612293 | p.Phe275Cys | missense_variant | 0.13 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
rpoA | 3877740 | c.768G>C | synonymous_variant | 0.12 |
ddn | 3986759 | c.-85C>A | upstream_gene_variant | 0.12 |
clpC1 | 4038258 | p.Ala816Val | missense_variant | 0.22 |
clpC1 | 4039407 | p.Arg433Gln | missense_variant | 0.15 |
clpC1 | 4039522 | p.Leu395Met | missense_variant | 0.12 |
clpC1 | 4040245 | p.Gly154Arg | missense_variant | 0.15 |
panD | 4044314 | c.-33C>A | upstream_gene_variant | 0.14 |
embC | 4239723 | c.-140C>A | upstream_gene_variant | 0.13 |
embC | 4240198 | p.Gln112His | missense_variant | 0.15 |
embA | 4242346 | c.-887C>T | upstream_gene_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4243466 | c.234C>A | synonymous_variant | 0.22 |
embA | 4243575 | p.Val115Ile | missense_variant | 0.14 |
embA | 4244411 | p.Trp393* | stop_gained | 0.15 |
embA | 4245323 | p.Met697Ile | missense_variant | 0.15 |
embB | 4246686 | p.Trp58Ser | missense_variant | 0.17 |
embB | 4247458 | p.Tyr315* | stop_gained | 0.11 |
embB | 4248763 | c.2250C>A | synonymous_variant | 0.12 |
embB | 4249607 | p.Thr1032Pro | missense_variant | 0.12 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4267763 | c.1074C>A | synonymous_variant | 0.13 |
aftB | 4268170 | p.Ala223Ser | missense_variant | 0.12 |
ethA | 4327451 | p.Val8Asp | missense_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407620 | p.Tyr195His | missense_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |
gid | 4408367 | c.-165G>T | upstream_gene_variant | 0.11 |