Run ID: ERR9896107
Sample name:
Date: 02-04-2023 13:28:21
Number of reads: 1050304
Percentage reads mapped: 99.14
Strain: lineage5.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage5 | West-Africa 1 | AFRI_2;AFRI_3 | RD711 | 1.0 |
lineage5.1.1 | West-Africa 1 | AFRI_2;AFRI_3 | RD711 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9566 | c.2265C>T | synonymous_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.97 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763280 | c.-90C>T | upstream_gene_variant | 1.0 |
rpoC | 766524 | p.Arg1052Leu | missense_variant | 0.13 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776621 | c.1860G>C | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
Rv1258c | 1407273 | p.Asp23Val | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
inhA | 1673338 | c.-864G>A | upstream_gene_variant | 1.0 |
tlyA | 1917885 | c.-55G>A | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101921 | c.1122G>A | synonymous_variant | 1.0 |
ndh | 2103112 | c.-70G>T | upstream_gene_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168813 | c.1722_1799delAGCGCTAGGTGCGTTCAATCTGCCGACGCTGAGTATTCCGTCGGTGACGGTTCCGCCGATCACGATTCCGGCTGGCAC | disruptive_inframe_deletion | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290062 | c.-821G>A | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2519018 | p.Pro302Thr | missense_variant | 0.2 |
kasA | 2519068 | c.954C>A | synonymous_variant | 0.17 |
eis | 2715011 | p.Ile108Val | missense_variant | 0.12 |
ribD | 2987263 | p.Val142Ala | missense_variant | 0.11 |
ribD | 2987421 | p.Gly195Arg | missense_variant | 0.12 |
ribD | 2987436 | p.Gly200Trp | missense_variant | 0.12 |
ribD | 2987517 | p.Ile227Val | missense_variant | 0.12 |
thyX | 3068083 | c.-138T>C | upstream_gene_variant | 0.1 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
ald | 3087184 | c.368_373delCCGACG | disruptive_inframe_deletion | 1.0 |
Rv3083 | 3449644 | p.Ala381Thr | missense_variant | 0.97 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
alr | 3840932 | c.489C>T | synonymous_variant | 1.0 |
rpoA | 3878493 | c.15G>A | synonymous_variant | 1.0 |
rpoA | 3878651 | c.-144C>A | upstream_gene_variant | 0.67 |
ddn | 3986987 | c.144G>T | synonymous_variant | 1.0 |
ddn | 3987180 | p.Asp113Asn | missense_variant | 1.0 |
clpC1 | 4040824 | c.-120C>T | upstream_gene_variant | 1.0 |
embC | 4239843 | c.-20A>C | upstream_gene_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4240822 | c.960C>G | synonymous_variant | 0.11 |
embC | 4241689 | c.1827G>T | synonymous_variant | 0.15 |
embC | 4241732 | p.Ala624Ser | missense_variant | 0.18 |
embC | 4242037 | p.Gln725His | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243826 | c.594G>A | synonymous_variant | 0.14 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embA | 4244635 | p.Val468Ala | missense_variant | 1.0 |
embA | 4245147 | p.Pro639Ser | missense_variant | 1.0 |
embB | 4246118 | c.-396G>C | upstream_gene_variant | 0.1 |
embA | 4246183 | p.Ala984Val | missense_variant | 0.12 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4248020 | p.Leu503Met | missense_variant | 0.25 |
embB | 4249772 | p.Gly1087Cys | missense_variant | 0.14 |
embB | 4249799 | p.Ile1096Phe | missense_variant | 0.12 |
aftB | 4267582 | p.Gly419Arg | missense_variant | 0.17 |
aftB | 4267589 | c.1248G>A | synonymous_variant | 0.2 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethR | 4326928 | c.-621G>A | upstream_gene_variant | 1.0 |
ethA | 4327103 | p.Gly124Asp | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
PPE35 | 2168813 | c.1721_1799delNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNC | frameshift_variant | 1.0 |