Run ID: SRR16295791
Sample name:
Date: 03-04-2023 17:03:16
Number of reads: 3876546
Percentage reads mapped: 59.8
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 |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.56 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5320 | c.81C>T | synonymous_variant | 0.14 |
gyrB | 5928 | p.Pro230Leu | missense_variant | 0.15 |
gyrB | 5943 | p.Glu235Gly | missense_variant | 0.17 |
gyrB | 7122 | p.Pro628Leu | missense_variant | 0.14 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9699 | p.Gly800Cys | missense_variant | 0.17 |
fgd1 | 491200 | p.Arg140Trp | missense_variant | 0.12 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.57 |
mshA | 576513 | p.Leu389Gln | missense_variant | 0.22 |
ccsA | 619717 | c.-174G>A | upstream_gene_variant | 0.17 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoB | 763299 | p.Ser1165Pro | missense_variant | 0.17 |
rpoC | 765258 | p.Arg630Gln | missense_variant | 0.17 |
rpoC | 767209 | c.3840T>C | synonymous_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776011 | p.Gln824* | stop_gained | 0.15 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776402 | c.2079C>A | synonymous_variant | 0.12 |
mmpL5 | 777291 | p.Ala397Val | missense_variant | 0.18 |
mmpL5 | 777398 | c.1083G>A | synonymous_variant | 0.12 |
mmpL5 | 777639 | p.Leu281Pro | missense_variant | 0.18 |
mmpR5 | 779004 | c.19delG | frameshift_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781732 | p.Thr58Met | missense_variant | 0.12 |
rpsL | 781879 | p.Val107Ala | missense_variant | 0.14 |
fbiC | 1302873 | c.-58A>G | upstream_gene_variant | 0.11 |
fbiC | 1303296 | c.366T>C | synonymous_variant | 0.17 |
fbiC | 1304428 | p.Arg500* | stop_gained | 0.17 |
fbiC | 1305022 | p.His698Tyr | missense_variant | 0.12 |
Rv1258c | 1406357 | p.Ile328Met | missense_variant | 0.22 |
Rv1258c | 1406536 | p.Gly269Ser | missense_variant | 0.18 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
embR | 1416659 | p.Arg230Leu | missense_variant | 0.15 |
embR | 1417313 | p.Asp12Gly | missense_variant | 0.12 |
embR | 1417394 | c.-47C>T | upstream_gene_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472501 | n.656G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472669 | n.824_825insTGGA | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472678 | n.833T>G | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472682 | n.839_843delGGGAT | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472701 | n.856T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472952 | n.1108_1112delGTCTC | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472959 | n.1114_1115insTGTTA | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472967 | n.1122G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472970 | n.1125C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472971 | n.1126G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472973 | n.1129_1130delAT | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472977 | n.1132G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472990 | n.1145A>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.14 |
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 | 0.13 |
rrl | 1475239 | n.1582A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476135 | n.2478T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476204 | n.2547C>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476214 | n.2557G>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476229 | n.2572C>G | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.86 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.94 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.86 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476524 | n.2867C>T | non_coding_transcript_exon_variant | 0.84 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.83 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.83 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.78 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476572 | n.2915G>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476577 | n.2920T>G | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476595 | n.2938C>T | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476602 | n.2945G>A | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476607 | n.2950C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476614 | n.2957A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476712 | n.3055C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476793 | n.3136A>G | splice_region_variant&non_coding_transcript_exon_variant | 0.13 |
fabG1 | 1673358 | c.-82T>C | upstream_gene_variant | 0.2 |
rpsA | 1833641 | p.Asn34Asp | missense_variant | 0.18 |
rpsA | 1833648 | p.Gly36Val | missense_variant | 0.17 |
rpsA | 1833651 | p.Asp37Ala | missense_variant | 0.17 |
rpsA | 1833658 | c.117C>T | synonymous_variant | 0.17 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
rpsA | 1834310 | p.Glu257Lys | missense_variant | 0.12 |
tlyA | 1917953 | p.Ala5Val | missense_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2156276 | c.-165C>T | upstream_gene_variant | 0.17 |
PPE35 | 2167824 | p.Gly930Asp | missense_variant | 0.22 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169970 | p.Gly215Ser | missense_variant | 0.17 |
PPE35 | 2170035 | p.Val193Ala | missense_variant | 0.17 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.17 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.17 |
Rv1979c | 2222913 | c.252C>A | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289164 | c.78G>A | synonymous_variant | 0.14 |
pncA | 2289545 | c.-304T>C | upstream_gene_variant | 0.15 |
pncA | 2289762 | c.-521G>A | upstream_gene_variant | 0.2 |
pncA | 2290067 | c.-826C>A | upstream_gene_variant | 0.25 |
kasA | 2518153 | c.39C>T | synonymous_variant | 0.14 |
kasA | 2518348 | c.234A>T | synonymous_variant | 0.17 |
kasA | 2518611 | p.Thr166Asn | missense_variant | 0.13 |
eis | 2714605 | c.727delG | frameshift_variant | 0.25 |
eis | 2715327 | c.6T>A | synonymous_variant | 0.12 |
eis | 2715467 | c.-135A>G | upstream_gene_variant | 1.0 |
ahpC | 2726071 | c.-122C>T | upstream_gene_variant | 0.12 |
folC | 2746413 | p.Pro396Ser | missense_variant | 0.14 |
folC | 2746911 | p.Thr230Ala | missense_variant | 0.15 |
folC | 2747026 | c.573C>A | synonymous_variant | 0.18 |
pepQ | 2859548 | p.Gly291Cys | missense_variant | 0.12 |
Rv2752c | 3065324 | p.Ala290Thr | missense_variant | 0.17 |
thyX | 3067510 | c.436C>T | synonymous_variant | 0.15 |
thyX | 3067630 | p.Gln106Lys | missense_variant | 0.12 |
thyA | 3073888 | p.Ser195* | stop_gained | 0.17 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086997 | p.Thr60Gly | missense_variant | 0.18 |
fbiD | 3339311 | p.Asp65Ala | missense_variant | 0.12 |
fbiD | 3339314 | p.Glu66Ala | missense_variant | 0.12 |
fbiD | 3339321 | c.204G>C | synonymous_variant | 0.12 |
fbiD | 3339756 | p.His213Gln | missense_variant | 0.2 |
Rv3083 | 3449013 | c.510C>T | synonymous_variant | 0.17 |
Rv3083 | 3449017 | p.Asp172Tyr | missense_variant | 0.17 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568819 | c.-140C>T | upstream_gene_variant | 0.15 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiA | 3640458 | c.-85T>G | upstream_gene_variant | 0.22 |
fbiB | 3640879 | c.-656C>T | upstream_gene_variant | 1.0 |
fbiB | 3641109 | c.-426C>T | upstream_gene_variant | 0.13 |
fbiB | 3641706 | p.Gly58Cys | missense_variant | 0.18 |
fbiB | 3642231 | c.697C>T | synonymous_variant | 0.12 |
fbiB | 3642838 | p.Leu435Ser | missense_variant | 0.13 |
alr | 3840548 | c.873G>A | synonymous_variant | 0.17 |
rpoA | 3878258 | p.Val84Leu | missense_variant | 0.11 |
rpoA | 3878569 | c.-62C>G | upstream_gene_variant | 0.33 |
ddn | 3986925 | p.Met28Val | missense_variant | 0.25 |
clpC1 | 4039753 | p.Gln318* | stop_gained | 0.17 |
clpC1 | 4040831 | c.-128delG | upstream_gene_variant | 0.17 |
embC | 4240291 | c.429G>A | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4246028 | c.-486G>T | upstream_gene_variant | 0.12 |
embA | 4246029 | p.Pro933Ser | missense_variant | 0.12 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.53 |
embB | 4248008 | p.Leu499Met | missense_variant | 0.17 |
aftB | 4267187 | c.1650T>A | synonymous_variant | 0.18 |
aftB | 4267190 | c.1647T>A | synonymous_variant | 0.17 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4268250 | p.Ala196Val | missense_variant | 0.2 |
aftB | 4269471 | c.-635C>A | upstream_gene_variant | 0.13 |
ubiA | 4269578 | c.255delC | frameshift_variant | 0.2 |
ethA | 4326474 | p.Pro334Ala | missense_variant | 1.0 |
whiB6 | 4338208 | p.Pro105Leu | missense_variant | 0.2 |
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 |