Run ID: SRR19304114
Sample name:
Date: 03-04-2023 21:25:07
Number of reads: 3779433
Percentage reads mapped: 73.42
Strain: lineage1.2.1.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.2.1 | Indo-Oceanic | EAI2 | RD239 | 1.0 |
lineage1.2.1.2 | Indo-Oceanic | NA | RD239 | 1.0 |
lineage1.2.1.2.1 | Indo-Oceanic | NA | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.45 | streptomycin |
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 | 9260 | c.1959G>C | synonymous_variant | 0.99 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575368 | c.21T>C | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.28 |
mshA | 576113 | p.Arg256Gly | missense_variant | 0.17 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763531 | c.162G>C | synonymous_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406312 | c.1029T>C | synonymous_variant | 0.99 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
atpE | 1460907 | c.-138T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472128 | n.283G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472673 | n.828T>A | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472687 | n.843dupT | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473147 | n.1302G>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473249 | n.1404T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473255 | n.1410A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473352 | n.1507C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474639 | n.982G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474830 | n.1173A>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474831 | n.1174A>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474883 | n.1226T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476227 | n.2570C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476543 | n.2886G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476573 | n.2916A>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476577 | n.2920T>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476596 | n.2939C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476601 | n.2944G>A | non_coding_transcript_exon_variant | 0.12 |
inhA | 1674162 | c.-40C>T | upstream_gene_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 | 2170065 | p.Ala183Gly | missense_variant | 0.23 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518031 | c.-84G>C | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2519048 | p.Gly312Ser | missense_variant | 1.0 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.99 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.24 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339417 | c.300A>G | synonymous_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.71 |
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 | 3568488 | c.191delG | frameshift_variant | 1.0 |
fbiB | 3640557 | c.-978T>C | upstream_gene_variant | 1.0 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.24 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 0.98 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243580 | c.348G>A | synonymous_variant | 1.0 |
embA | 4244420 | c.1188G>C | synonymous_variant | 1.0 |
embA | 4245086 | c.1854C>T | synonymous_variant | 0.75 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.2 |
embB | 4247578 | c.1065G>A | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4248324 | p.Ala604Gly | missense_variant | 0.26 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ubiA | 4269864 | c.-32delG | upstream_gene_variant | 0.99 |
whiB6 | 4338361 | p.Arg54Gln | 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 | 0.99 |