Run ID: ERR4820447
Sample name:
Date: 01-04-2023 16:41:17
Number of reads: 501102
Percentage reads mapped: 99.55
Strain: lineage3.1.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 | 1.0 |
lineage3.1.2 | East-African-Indian | CAS;CAS2 | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8847 | p.Val516Phe | missense_variant | 0.11 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9778 | p.Asn826Ile | missense_variant | 0.17 |
fgd1 | 490648 | c.-135C>A | upstream_gene_variant | 0.25 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
ccsA | 620506 | p.Pro206Ser | missense_variant | 0.11 |
ccsA | 620842 | p.His318Asn | missense_variant | 0.12 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoB | 762925 | p.Thr1040Asn | missense_variant | 0.11 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 765966 | p.Arg866His | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775720 | p.Val921Leu | missense_variant | 0.1 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777133 | p.Val450Ile | missense_variant | 0.1 |
mmpL5 | 777155 | c.1326G>C | synonymous_variant | 0.12 |
mmpL5 | 777944 | c.537A>T | synonymous_variant | 0.29 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801390 | c.582C>A | synonymous_variant | 0.15 |
fbiC | 1303158 | c.231delG | frameshift_variant | 0.13 |
fbiC | 1304099 | p.Gln390Pro | missense_variant | 0.13 |
Rv1258c | 1407540 | c.-200C>A | upstream_gene_variant | 0.18 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472638 | n.793A>G | non_coding_transcript_exon_variant | 0.2 |
rpsA | 1834166 | p.Gly209Cys | missense_variant | 0.12 |
rpsA | 1834222 | p.Asp227Glu | missense_variant | 0.17 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918696 | p.Ala253Pro | missense_variant | 1.0 |
katG | 2153965 | p.Ala716Val | missense_variant | 0.2 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167955 | c.2658A>C | synonymous_variant | 0.1 |
PPE35 | 2168604 | p.Pro670Leu | missense_variant | 1.0 |
PPE35 | 2169347 | c.1265delT | frameshift_variant | 0.15 |
Rv1979c | 2222684 | p.Trp161Arg | missense_variant | 0.12 |
Rv1979c | 2223031 | p.Pro45His | missense_variant | 0.12 |
Rv1979c | 2223257 | c.-93G>C | 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 |
kasA | 2518949 | p.Ala279Ser | missense_variant | 0.13 |
eis | 2715432 | c.-100C>T | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
folC | 2747130 | p.Ala157Thr | missense_variant | 0.13 |
Rv2752c | 3064531 | p.Thr554Met | missense_variant | 0.25 |
thyA | 3074009 | p.Ala155Thr | missense_variant | 0.18 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339273 | c.156T>G | synonymous_variant | 0.23 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475052 | p.Asn349Thr | missense_variant | 1.0 |
fprA | 3475297 | p.Arg431Trp | missense_variant | 0.15 |
whiB7 | 3568737 | c.-58C>T | upstream_gene_variant | 0.14 |
fbiA | 3640525 | c.-17delA | upstream_gene_variant | 0.17 |
fbiA | 3640936 | c.395delT | frameshift_variant | 0.11 |
fbiB | 3642469 | c.938_940dupTGA | disruptive_inframe_insertion | 0.18 |
alr | 3841612 | c.-193_-192insC | upstream_gene_variant | 0.14 |
rpoA | 3877804 | p.Gly235Glu | missense_variant | 0.11 |
rpoA | 3878143 | p.Gly122Asp | missense_variant | 0.13 |
rpoA | 3878218 | p.Leu97Pro | missense_variant | 0.1 |
ddn | 3986678 | c.-165delA | upstream_gene_variant | 0.18 |
embC | 4241468 | p.Ala536Thr | missense_variant | 0.12 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4247356 | c.843C>T | synonymous_variant | 0.14 |
embB | 4248241 | c.1728C>G | synonymous_variant | 1.0 |
aftB | 4267619 | c.1217delG | frameshift_variant | 0.33 |
ubiA | 4269151 | p.Ala228Val | missense_variant | 0.25 |
ethA | 4326548 | p.Lys309Arg | missense_variant | 0.11 |
ethA | 4327461 | p.Leu5Ile | missense_variant | 0.14 |
ethR | 4327693 | p.Asp49Asn | missense_variant | 1.0 |
ethR | 4327970 | p.Phe141Ser | missense_variant | 0.29 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408147 | p.Ala19Val | missense_variant | 1.0 |
gid | 4408342 | c.-140C>T | upstream_gene_variant | 0.11 |