Run ID: SRR21676929
Sample name:
Date: 04-04-2023 02:45:08
Number of reads: 1235853
Percentage reads mapped: 87.47
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 | 0.65 | 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 | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491730 | c.948C>T | synonymous_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575368 | c.21T>C | synonymous_variant | 1.0 |
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 | 1.0 |
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 | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472596 | n.751G>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472598 | n.753A>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472614 | n.769G>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.68 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.66 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.66 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.65 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472825 | n.980G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472826 | n.981G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472836 | n.991G>C | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472838 | n.993A>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472845 | n.1000G>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472847 | n.1002G>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472873 | n.1028C>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472875 | n.1030T>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472877 | n.1032T>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472880 | n.1035_1036insA | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473206 | n.1361G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473226 | n.1381C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474639 | n.982G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474892 | n.1235G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474902 | n.1245T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474903 | n.1246T>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474913 | n.1256T>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474920 | n.1263G>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475126 | n.1469G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476135 | n.2478T>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476179 | n.2522C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476204 | n.2547C>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476213 | n.2556G>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476268 | n.2611A>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476275 | n.2618T>A | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476279 | n.2622G>A | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.68 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476572 | n.2915G>A | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.25 |
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 |
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 |
kasA | 2519048 | p.Gly312Ser | missense_variant | 1.0 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
thyA | 3073958 | p.Leu172Val | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339417 | c.300A>G | synonymous_variant | 1.0 |
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 | 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 | 4243580 | c.348G>A | synonymous_variant | 1.0 |
embA | 4244420 | c.1188G>C | synonymous_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247578 | c.1065G>A | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
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 | 0.98 |
ethR | 4328058 | p.Glu170Asp | missense_variant | 1.0 |
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 | 1.0 |