Run ID: ERR046918
Sample name:
Date: 31-03-2023 08:57:15
Number of reads: 4926696
Percentage reads mapped: 99.18
Strain: lineage5.1.3
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage5 | West-Africa 1 | AFRI_2;AFRI_3 | RD711 | 1.0 |
lineage5.1.3 | West-Africa 1 | AFRI_2;AFRI_3 | RD711 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 760314 | p.Val170Phe | missense_variant | 0.14 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7493 | c.192C>T | synonymous_variant | 0.23 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7799 | c.498A>C | synonymous_variant | 0.18 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9566 | c.2265C>T | synonymous_variant | 0.99 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576751 | p.Lys468Asn | missense_variant | 0.18 |
ccsA | 620748 | c.858T>G | synonymous_variant | 0.21 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.33 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777399 | p.Thr361Arg | missense_variant | 0.2 |
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 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.21 |
rrs | 1471658 | n.-188T>G | upstream_gene_variant | 0.17 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473343 | n.1498G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475370 | n.1713G>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476408 | n.2751G>C | non_coding_transcript_exon_variant | 0.16 |
inhA | 1673338 | c.-864G>A | upstream_gene_variant | 0.99 |
inhA | 1674892 | p.Asn231Asp | missense_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101921 | c.1122G>A | synonymous_variant | 1.0 |
ndh | 2102891 | p.Phe51Ser | missense_variant | 0.3 |
ndh | 2103112 | c.-70G>T | upstream_gene_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.98 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.28 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288951 | c.291T>G | synonymous_variant | 1.0 |
pncA | 2290062 | c.-821G>A | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2518323 | p.Ser70Asn | missense_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.18 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.2 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
ald | 3087184 | c.368_373delCCGACG | disruptive_inframe_deletion | 1.0 |
fbiD | 3339153 | p.Leu12Phe | missense_variant | 0.17 |
fbiD | 3339550 | p.Gly145Trp | missense_variant | 0.21 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474601 | p.Arg199Gly | missense_variant | 0.26 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.25 |
fbiB | 3642734 | c.1200G>C | synonymous_variant | 0.17 |
alr | 3840932 | c.489C>T | synonymous_variant | 1.0 |
rpoA | 3878493 | c.15G>A | synonymous_variant | 0.99 |
rpoA | 3878601 | c.-94C>G | upstream_gene_variant | 0.19 |
rpoA | 3878641 | c.-135delG | upstream_gene_variant | 0.13 |
ddn | 3986987 | c.144G>T | synonymous_variant | 1.0 |
ddn | 3987013 | p.Gly57Ala | missense_variant | 0.18 |
ddn | 3987180 | p.Asp113Asn | missense_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.17 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.23 |
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 | 0.98 |
embC | 4241056 | c.1194C>G | synonymous_variant | 0.21 |
embC | 4241456 | p.Ala532Pro | missense_variant | 0.39 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.24 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.35 |
embC | 4242827 | p.Leu989Val | missense_variant | 0.16 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embA | 4244635 | p.Val468Ala | missense_variant | 1.0 |
embA | 4245147 | p.Pro639Ser | missense_variant | 0.99 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4248725 | p.Ser738Ala | missense_variant | 0.21 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.18 |
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 | 0.99 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.23 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |