Run ID: ERR4815414
Sample name:
Date: 01-04-2023 13:51:04
Number of reads: 405120
Percentage reads mapped: 89.29
Strain:
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | 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 |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7387 | p.Ile29Thr | missense_variant | 0.33 |
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 | 490880 | p.Asp33Gly | missense_variant | 0.15 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575368 | c.21T>C | synonymous_variant | 1.0 |
mshA | 575442 | p.Gly32Glu | missense_variant | 1.0 |
ccsA | 620625 | c.737delT | frameshift_variant | 0.12 |
rpoB | 760017 | c.215dupG | frameshift_variant | 0.25 |
rpoB | 760906 | p.Phe367Tyr | missense_variant | 0.29 |
rpoB | 762618 | c.2814delG | frameshift_variant | 0.2 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763531 | c.162G>C | synonymous_variant | 1.0 |
rpoC | 763854 | p.Val162Asp | missense_variant | 0.17 |
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 | 775831 | c.2649delC | frameshift_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781503 | c.-57T>C | upstream_gene_variant | 0.4 |
fbiC | 1303476 | c.546G>A | synonymous_variant | 0.29 |
Rv1258c | 1406312 | c.1029T>C | synonymous_variant | 1.0 |
Rv1258c | 1406547 | p.Met265Lys | missense_variant | 0.17 |
Rv1258c | 1406874 | p.Val156Asp | missense_variant | 0.13 |
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 | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.82 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1473226 | n.1381C>G | non_coding_transcript_exon_variant | 0.5 |
fabG1 | 1673963 | p.Asn175Thr | missense_variant | 0.2 |
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 |
pncA | 2289425 | c.-184A>T | upstream_gene_variant | 0.29 |
pncA | 2289524 | c.-283C>T | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2519048 | p.Gly312Ser | missense_variant | 1.0 |
eis | 2715460 | c.-128A>T | upstream_gene_variant | 0.11 |
ahpC | 2726051 | c.-142G>A | upstream_gene_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 | 3474417 | c.411C>T | synonymous_variant | 0.14 |
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 | 3642172 | p.Pro213Leu | missense_variant | 0.22 |
alr | 3840215 | p.Tyr402* | stop_gained | 0.33 |
rpoA | 3877481 | p.Glu343Lys | missense_variant | 0.29 |
rpoA | 3877563 | p.Phe315Leu | missense_variant | 0.29 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embC | 4242418 | c.2557delA | frameshift_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243580 | c.348G>A | synonymous_variant | 1.0 |
embA | 4243659 | p.Ala143Ser | missense_variant | 0.11 |
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 |
embB | 4248451 | p.Trp646Cys | missense_variant | 0.17 |
embB | 4249186 | c.2673G>T | synonymous_variant | 0.15 |
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 |