Run ID: SRR12199472
Sample name:
Date: 03-04-2023 06:42:22
Number of reads: 747579
Percentage reads mapped: 90.15
Strain: lineage1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 0.99 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
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 | 491395 | p.Glu205Lys | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
ccsA | 620221 | p.Tyr111His | 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 |
rpoC | 766009 | c.2640G>C | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776041 | p.Ala814Thr | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777032 | c.1449C>G | synonymous_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303716 | c.786C>T | synonymous_variant | 0.15 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471896 | n.51T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1471900 | n.55C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472518 | n.673G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472544 | n.699C>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472575 | n.730C>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472669 | n.824_825insTAGA | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472678 | n.833T>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472682 | n.839_843delGGGAT | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472689 | n.844C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472701 | n.856T>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473080 | n.1235C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473081 | n.1236C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473352 | n.1507C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474218 | n.561T>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474228 | n.571T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474236 | n.579G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474249 | n.592G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474253 | n.596A>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474830 | n.1173A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474831 | n.1174A>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475071 | n.1414G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475154 | n.1497C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476214 | n.2557G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476573 | n.2916A>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476577 | n.2920T>G | non_coding_transcript_exon_variant | 0.18 |
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 | 2169351 | p.Ala421Gly | missense_variant | 0.21 |
PPE35 | 2169353 | c.1260C>T | synonymous_variant | 0.16 |
PPE35 | 2169488 | c.1125G>C | synonymous_variant | 0.15 |
PPE35 | 2169491 | c.1122T>C | synonymous_variant | 0.15 |
PPE35 | 2169924 | p.Ala230Gly | missense_variant | 0.14 |
PPE35 | 2169933 | p.Ile227Thr | missense_variant | 0.14 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.46 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.43 |
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 | 2714688 | c.637_644dupGAATCGTT | frameshift_variant | 0.86 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
Rv2752c | 3065307 | p.Met295Ile | missense_variant | 0.12 |
Rv2752c | 3065896 | p.Asp99Gly | missense_variant | 0.11 |
thyX | 3067675 | p.His91Asn | missense_variant | 0.15 |
thyA | 3074344 | p.Pro43Leu | missense_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339309 | c.192C>T | synonymous_variant | 0.17 |
fbiD | 3339472 | p.Ala119Thr | missense_variant | 0.18 |
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 |
whiB7 | 3568456 | p.Ser75Leu | missense_variant | 0.14 |
Rv3236c | 3612739 | c.378C>T | synonymous_variant | 1.0 |
fbiB | 3641665 | p.Asp44Ala | missense_variant | 0.12 |
fbiB | 3641668 | p.Val45Ala | missense_variant | 0.12 |
alr | 3840411 | p.Gly337Asp | missense_variant | 1.0 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.23 |
clpC1 | 4039003 | p.Asn568Asp | missense_variant | 0.13 |
clpC1 | 4039048 | p.Gly553Ser | missense_variant | 0.11 |
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 | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.13 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.14 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.14 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4266961 | c.1876C>A | synonymous_variant | 0.15 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
aftB | 4269621 | c.-785C>A | upstream_gene_variant | 1.0 |
whiB6 | 4338420 | c.102C>T | synonymous_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |
whiB6 | 4337939 | c.-123_*231del | transcript_ablation | 1.0 |