Run ID: SRR21595825
Sample name:
Date: 04-04-2023 02:17:12
Number of reads: 795113
Percentage reads mapped: 93.49
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 |
---|---|---|---|---|---|
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.5 | 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 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575368 | c.21T>C | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.22 |
mshA | 576111 | p.Ala255Gly | missense_variant | 0.19 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.19 |
mshA | 576496 | c.1149C>T | synonymous_variant | 0.15 |
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 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.1 |
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 | 1472344 | n.499C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472379 | n.534T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472400 | n.555C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472412 | n.567A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472416 | n.571C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472513 | n.668T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472549 | n.704G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472655 | n.810G>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472660 | n.815T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472692 | n.847T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.5 |
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 | 0.6 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473080 | n.1235C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473081 | n.1236C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473093 | n.1248C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473102 | n.1257C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1473130 | n.1285G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.75 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473172 | n.1327T>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474639 | n.982G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474749 | n.1092C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474753 | n.1097delC | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474780 | n.1123C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.6 |
rrl | 1474801 | n.1144G>A | non_coding_transcript_exon_variant | 0.6 |
rrl | 1474802 | n.1145T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474831 | n.1174A>G | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474832 | n.1175A>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.57 |
rrl | 1474901 | n.1244A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474913 | n.1256T>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.5 |
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 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.17 |
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 |
fbiB | 3642809 | c.1275G>A | synonymous_variant | 0.11 |
rpoA | 3878630 | c.-123G>C | upstream_gene_variant | 0.15 |
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 | 4246584 | p.Arg24Pro | missense_variant | 0.3 |
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 | 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 |