Run ID: ERR4820242
Sample name:
Date: 01-04-2023 16:34:09
Number of reads: 918014
Percentage reads mapped: 96.52
Strain: lineage1.2.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 | 0.99 |
lineage1.2.2.1 | Indo-Oceanic | NA | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.64 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5075 | c.-165C>T | upstream_gene_variant | 1.0 |
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 | 8227 | p.Arg309Gln | missense_variant | 0.13 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.94 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9749 | c.2448G>T | synonymous_variant | 0.12 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_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 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.89 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.89 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472612 | n.767G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472668 | n.825_829delGGGTT | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472675 | n.830_831insAGAC | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472680 | n.835C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472682 | n.837T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472683 | n.838T>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472687 | n.842A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472689 | n.844C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.65 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472958 | n.1113A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472974 | n.1129A>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472988 | n.1143T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473199 | n.1356delA | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473352 | n.1507C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1473388 | n.-270G>T | upstream_gene_variant | 0.17 |
rrl | 1474505 | n.848C>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474508 | n.851C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474516 | n.859C>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474527 | n.870T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474537 | n.880G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474542 | n.885A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476227 | n.2570C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476585 | n.2928A>G | non_coding_transcript_exon_variant | 0.4 |
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 | 2168205 | p.Pro803Gln | missense_variant | 1.0 |
Rv1979c | 2221947 | c.1218T>C | synonymous_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289698 | c.-458delT | upstream_gene_variant | 0.11 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2519234 | p.Glu374Lys | missense_variant | 1.0 |
eis | 2714566 | p.Leu256Pro | missense_variant | 0.14 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.14 |
folC | 2746303 | c.1296C>T | synonymous_variant | 0.14 |
folC | 2746660 | c.938delT | frameshift_variant | 0.2 |
pepQ | 2860121 | p.His100Tyr | missense_variant | 0.2 |
thyA | 3074645 | c.-174T>G | upstream_gene_variant | 0.18 |
thyA | 3074648 | c.-177T>G | upstream_gene_variant | 0.24 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
Rv3083 | 3449134 | p.Gln211* | stop_gained | 0.17 |
Rv3083 | 3449330 | p.Arg276His | missense_variant | 0.15 |
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 |
Rv3236c | 3612804 | p.Ala105Thr | missense_variant | 1.0 |
Rv3236c | 3612835 | c.282T>G | synonymous_variant | 0.29 |
alr | 3841129 | p.Leu98Ile | missense_variant | 0.12 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
panD | 4044307 | c.-26A>G | upstream_gene_variant | 1.0 |
embC | 4240650 | p.Leu263Pro | missense_variant | 0.25 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4240750 | c.888C>T | synonymous_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243532 | c.300C>A | synonymous_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embA | 4246275 | p.Ala1015Thr | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4249755 | p.Gly1081Asp | missense_variant | 0.11 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
ubiA | 4269469 | p.Pro122Gln | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4326439 | p.Asn345Lys | 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 |
gid | 4408124 | p.Ala27Pro | missense_variant | 1.0 |