Run ID: ERR3470647
Sample name:
Date: 01-04-2023 02:29:39
Number of reads: 2238500
Percentage reads mapped: 91.14
Strain: lineage3
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpsL | 781822 | p.Lys88Met | missense_variant | 0.95 | streptomycin |
gid | 4408100 | c.102delG | frameshift_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 6616 | c.-686A>G | upstream_gene_variant | 0.13 |
gyrA | 6622 | c.-680C>T | upstream_gene_variant | 0.14 |
gyrA | 6700 | c.-602T>C | upstream_gene_variant | 0.13 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9596 | c.2295G>T | synonymous_variant | 0.93 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoB | 760223 | c.417T>C | synonymous_variant | 0.14 |
rpoB | 760340 | c.534G>T | synonymous_variant | 0.14 |
rpoB | 762233 | c.2427G>C | synonymous_variant | 0.17 |
rpoB | 762246 | c.2440C>T | synonymous_variant | 0.17 |
rpoB | 762254 | c.2448T>G | synonymous_variant | 0.14 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.15 |
rpoC | 762995 | c.-375G>T | upstream_gene_variant | 0.16 |
rpoC | 763013 | c.-357C>G | upstream_gene_variant | 0.19 |
rpoC | 763028 | c.-342T>C | upstream_gene_variant | 0.19 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763034 | c.-336C>G | upstream_gene_variant | 0.18 |
rpoC | 763040 | c.-330C>G | upstream_gene_variant | 0.18 |
rpoC | 763070 | c.-300T>C | upstream_gene_variant | 0.16 |
rpoC | 763085 | c.-285C>G | upstream_gene_variant | 0.16 |
rpoC | 763115 | c.-255T>C | upstream_gene_variant | 0.15 |
rpoC | 764112 | p.Tyr248Phe | missense_variant | 0.14 |
rpoC | 764116 | c.747C>T | synonymous_variant | 0.14 |
rpoC | 764131 | c.762T>C | synonymous_variant | 0.14 |
rpoC | 764140 | c.771C>T | synonymous_variant | 0.17 |
rpoC | 764181 | p.Asp271Gly | missense_variant | 0.86 |
rpoC | 764188 | c.819A>G | synonymous_variant | 0.15 |
rpoC | 764236 | c.867G>A | synonymous_variant | 0.15 |
rpoC | 764248 | c.879C>G | synonymous_variant | 0.16 |
rpoC | 764257 | c.888G>C | synonymous_variant | 0.15 |
rpoC | 764272 | c.903G>C | synonymous_variant | 0.14 |
rpoC | 764353 | c.984G>C | synonymous_variant | 0.13 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.14 |
rpoC | 764489 | c.1120C>T | synonymous_variant | 0.13 |
rpoC | 767033 | c.3664_3666delTCGinsAGC | synonymous_variant | 0.15 |
rpoC | 767059 | c.3690T>G | synonymous_variant | 0.15 |
rpoC | 767062 | c.3693C>A | synonymous_variant | 0.15 |
rpoC | 767098 | c.3729T>C | synonymous_variant | 0.19 |
rpoC | 767111 | c.3742C>T | synonymous_variant | 0.16 |
rpoC | 767119 | c.3750A>G | synonymous_variant | 0.16 |
rpoC | 767134 | c.3765C>A | synonymous_variant | 0.17 |
rpoC | 767158 | c.3789T>G | synonymous_variant | 0.15 |
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 |
fbiC | 1304711 | p.Ala594Asp | missense_variant | 0.12 |
fbiC | 1304742 | c.1812T>C | synonymous_variant | 0.14 |
fbiC | 1304757 | c.1827A>G | synonymous_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472736 | n.891G>A | non_coding_transcript_exon_variant | 0.96 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474151 | n.494C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474356 | n.699T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474362 | n.705A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475369 | n.1712G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475608 | n.1951T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475642 | n.1985T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475657 | n.2000A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475659 | n.2002G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475765 | n.2111delG | non_coding_transcript_exon_variant | 0.17 |
inhA | 1673985 | c.-217C>G | upstream_gene_variant | 0.14 |
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 | 2170769 | c.-157C>T | upstream_gene_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
folC | 2746810 | p.Phe263Leu | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878157 | c.351C>G | synonymous_variant | 0.13 |
rpoA | 3878163 | c.345C>T | synonymous_variant | 0.14 |
rpoA | 3878172 | c.336G>C | synonymous_variant | 0.14 |
rpoA | 3878226 | c.282C>G | synonymous_variant | 0.17 |
rpoA | 3878232 | c.276G>C | synonymous_variant | 0.16 |
rpoA | 3878247 | c.261G>C | synonymous_variant | 0.18 |
rpoA | 3878271 | c.237T>C | synonymous_variant | 0.18 |
rpoA | 3878284 | p.Glu75Ala | missense_variant | 0.17 |
rpoA | 3878292 | c.216T>C | synonymous_variant | 0.18 |
rpoA | 3878298 | c.210A>G | synonymous_variant | 0.16 |
rpoA | 3878304 | c.204G>C | synonymous_variant | 0.2 |
rpoA | 3878310 | c.198G>C | synonymous_variant | 0.21 |
rpoA | 3878313 | c.195G>C | synonymous_variant | 0.18 |
rpoA | 3878322 | c.186A>G | synonymous_variant | 0.19 |
rpoA | 3878331 | c.177A>G | synonymous_variant | 0.19 |
rpoA | 3878334 | c.174T>C | synonymous_variant | 0.19 |
rpoA | 3878337 | c.171T>C | synonymous_variant | 0.21 |
rpoA | 3878346 | c.162T>C | synonymous_variant | 0.25 |
rpoA | 3878364 | c.144A>C | synonymous_variant | 0.27 |
rpoA | 3878367 | c.141C>G | synonymous_variant | 0.28 |
rpoA | 3878376 | c.132G>C | synonymous_variant | 0.23 |
rpoA | 3878385 | c.123C>G | synonymous_variant | 0.2 |
rpoA | 3878388 | c.120C>G | synonymous_variant | 0.2 |
rpoA | 3878391 | c.117T>C | synonymous_variant | 0.2 |
rpoA | 3878415 | c.93C>T | synonymous_variant | 0.18 |
rpoA | 3878424 | c.84G>C | synonymous_variant | 0.17 |
rpoA | 3878436 | c.72A>G | synonymous_variant | 0.17 |
rpoA | 3878442 | c.66G>C | synonymous_variant | 0.17 |
rpoA | 3878478 | c.30C>G | synonymous_variant | 0.13 |
rpoA | 3878484 | c.24C>A | synonymous_variant | 0.15 |
rpoA | 3878490 | c.18C>A | synonymous_variant | 0.14 |
rpoA | 3878496 | c.12A>T | synonymous_variant | 0.14 |
clpC1 | 4039121 | c.1584T>C | synonymous_variant | 0.14 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245198 | p.Leu656Ile | missense_variant | 0.14 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |