Run ID: SRR7131297
Sample name:
Date: 04-04-2023 18:52:14
Number of reads: 2401661
Percentage reads mapped: 99.99
Strain: lineage1.2.1.2
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 |
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 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575368 | c.21T>C | synonymous_variant | 1.0 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.25 |
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 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
atpE | 1460907 | c.-138T>C | upstream_gene_variant | 1.0 |
rrs | 1471649 | n.-197C>A | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472597 | n.752G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472607 | n.762G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472952 | n.1107T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472955 | n.1110C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473270 | n.1425G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474540 | n.883T>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474584 | n.927C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474638 | n.981C>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474732 | n.1075A>G | non_coding_transcript_exon_variant | 0.88 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475722 | n.2065G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475751 | n.2094C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475753 | n.2096C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475775 | n.2118G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475883 | n.2226A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475937 | n.2280A>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475970 | n.2313C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476001 | n.2344T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476524 | n.2867C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476539 | n.2882A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.12 |
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 |
ald | 3086693 | c.-126delC | upstream_gene_variant | 1.0 |
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 | 0.12 |
Rv3083 | 3448379 | c.-125G>A | upstream_gene_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 |
panD | 4044312 | c.-31G>A | upstream_gene_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 | 4246584 | p.Arg24Pro | missense_variant | 0.17 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.16 |
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 |
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 |