Run ID: ERR9787223
Sample name:
Date: 02-04-2023 13:05:18
Number of reads: 3996827
Percentage reads mapped: 88.85
Strain: lineage6.3.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage6 | West-Africa 2 | AFRI_1 | RD702 | 0.99 |
lineage6.3 | West-Africa 2 | AFRI_1 | RD702 | 0.99 |
lineage6.3.1 | West-Africa 2 | AFRI_1 | RD702 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6446 | p.Ala403Ser | missense_variant | 0.93 |
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 |
fgd1 | 491668 | p.Lys296Glu | missense_variant | 0.98 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
ccsA | 619862 | c.-29G>A | upstream_gene_variant | 1.0 |
rpoB | 760424 | c.618C>G | synonymous_variant | 0.16 |
rpoB | 760430 | c.624T>C | synonymous_variant | 0.16 |
rpoB | 760475 | c.669A>G | synonymous_variant | 0.17 |
rpoB | 760481 | c.675G>C | synonymous_variant | 0.16 |
rpoB | 760484 | c.678A>G | synonymous_variant | 0.17 |
rpoB | 760969 | p.Ser388Leu | missense_variant | 0.94 |
rpoB | 761723 | p.Glu639Asp | missense_variant | 0.91 |
rpoB | 762338 | c.2532T>C | synonymous_variant | 0.14 |
rpoC | 762410 | c.-960T>C | upstream_gene_variant | 0.14 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.15 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.17 |
rpoC | 762995 | c.-375G>T | upstream_gene_variant | 0.16 |
rpoC | 763013 | c.-357C>G | upstream_gene_variant | 0.15 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.99 |
rpoC | 763675 | c.306C>G | synonymous_variant | 0.15 |
rpoC | 763774 | c.405G>C | synonymous_variant | 0.14 |
rpoC | 764554 | c.1185C>T | synonymous_variant | 0.14 |
rpoC | 764764 | c.1395T>C | synonymous_variant | 0.15 |
rpoC | 764815 | c.1446A>G | synonymous_variant | 0.15 |
rpoC | 764827 | c.1458G>C | synonymous_variant | 0.15 |
rpoC | 765739 | c.2370G>T | synonymous_variant | 0.14 |
rpoC | 765850 | c.2481G>C | synonymous_variant | 0.15 |
rpoC | 765892 | c.2523T>C | synonymous_variant | 0.15 |
rpoC | 765967 | c.2598C>T | synonymous_variant | 0.14 |
rpoC | 766549 | c.3180G>C | synonymous_variant | 0.15 |
rpoC | 766573 | c.3204T>C | synonymous_variant | 0.16 |
rpoC | 766582 | c.3213C>G | synonymous_variant | 0.14 |
rpoC | 766583 | p.Gly1072Ser | missense_variant | 0.14 |
rpoC | 766588 | p.Glu1073Asp | missense_variant | 0.15 |
rpoC | 766594 | c.3225G>C | synonymous_variant | 0.15 |
rpoC | 766597 | c.3228C>G | synonymous_variant | 0.15 |
rpoC | 766607 | p.Ile1080Leu | missense_variant | 0.16 |
rpoC | 766630 | c.3261G>C | synonymous_variant | 0.16 |
rpoC | 766657 | c.3288A>G | synonymous_variant | 0.18 |
rpoC | 766660 | c.3291G>C | synonymous_variant | 0.17 |
rpoC | 766672 | c.3303T>C | synonymous_variant | 0.18 |
rpoC | 766673 | p.Gly1102Asn | missense_variant | 0.18 |
rpoC | 766726 | c.3357T>C | synonymous_variant | 0.16 |
rpoC | 766738 | c.3369G>C | synonymous_variant | 0.16 |
rpoC | 766861 | c.3492G>C | synonymous_variant | 0.16 |
rpoC | 766864 | c.3495G>C | synonymous_variant | 0.16 |
rpoC | 766876 | c.3507C>T | synonymous_variant | 0.18 |
rpoC | 766882 | c.3513C>T | synonymous_variant | 0.17 |
rpoC | 766900 | c.3531T>C | synonymous_variant | 0.17 |
rpoC | 766933 | c.3564A>G | synonymous_variant | 0.17 |
rpoC | 766945 | c.3576A>G | synonymous_variant | 0.16 |
rpoC | 766963 | c.3594T>C | synonymous_variant | 0.15 |
rpoC | 766972 | c.3603G>C | synonymous_variant | 0.15 |
rpoC | 766996 | c.3627C>T | synonymous_variant | 0.18 |
rpoC | 767009 | c.3640_3642delTCGinsAGC | synonymous_variant | 0.16 |
rpoC | 767014 | c.3645G>C | synonymous_variant | 0.17 |
rpoC | 767033 | c.3664_3666delTCGinsAGT | synonymous_variant | 0.18 |
rpoC | 767059 | c.3690T>G | synonymous_variant | 0.16 |
rpoC | 767062 | c.3693C>A | synonymous_variant | 0.16 |
rpoC | 767098 | c.3729T>C | synonymous_variant | 0.15 |
rpoC | 767134 | c.3765C>A | synonymous_variant | 0.14 |
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 | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
atpE | 1461251 | c.207G>T | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474823 | n.1166C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474831 | n.1174A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474904 | n.1247G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474970 | n.1313G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475006 | n.1349A>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475088 | n.1431A>T | non_coding_transcript_exon_variant | 0.14 |
inhA | 1674434 | p.Val78Ala | missense_variant | 0.96 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102694 | p.Val117Ile | missense_variant | 0.98 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2222852 | p.Ala105Thr | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
thyX | 3067490 | c.456C>G | synonymous_variant | 0.15 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
Rv3083 | 3449781 | c.1278G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
alr | 3841377 | p.Thr15Ile | missense_variant | 1.0 |
rpoA | 3877679 | p.Ala277Ser | missense_variant | 0.15 |
rpoA | 3877696 | p.Thr271Ile | missense_variant | 0.85 |
rpoA | 3877704 | c.804G>C | synonymous_variant | 0.15 |
rpoA | 3878271 | c.237T>C | synonymous_variant | 0.17 |
rpoA | 3878292 | c.216T>C | synonymous_variant | 0.15 |
rpoA | 3878298 | c.210A>G | synonymous_variant | 0.15 |
rpoA | 3878304 | c.204G>C | synonymous_variant | 0.16 |
rpoA | 3878310 | c.198G>C | synonymous_variant | 0.16 |
rpoA | 3878313 | c.195G>C | synonymous_variant | 0.16 |
rpoA | 3878322 | c.186A>G | synonymous_variant | 0.16 |
rpoA | 3878331 | c.177A>G | synonymous_variant | 0.15 |
rpoA | 3878337 | c.171T>C | synonymous_variant | 0.15 |
rpoA | 3878346 | c.162T>C | synonymous_variant | 0.16 |
rpoA | 3878364 | c.144A>C | synonymous_variant | 0.15 |
rpoA | 3878367 | c.141C>G | synonymous_variant | 0.15 |
rpoA | 3878376 | c.132G>C | synonymous_variant | 0.17 |
rpoA | 3878385 | c.123C>G | synonymous_variant | 0.16 |
rpoA | 3878388 | c.120C>G | synonymous_variant | 0.16 |
rpoA | 3878391 | c.117T>C | synonymous_variant | 0.17 |
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 | 0.16 |
rpoA | 3878442 | c.66G>C | synonymous_variant | 0.16 |
rpoA | 3878454 | c.54A>C | synonymous_variant | 0.15 |
rpoA | 3878639 | c.-132C>G | upstream_gene_variant | 0.33 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241843 | p.Leu661Ile | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.99 |
embA | 4244220 | c.988C>T | synonymous_variant | 0.96 |
embA | 4244379 | p.Pro383Ser | missense_variant | 0.96 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4268477 | c.360C>T | synonymous_variant | 0.98 |
ubiA | 4268953 | p.Thr294Met | missense_variant | 1.0 |
aftB | 4269351 | c.-515C>T | upstream_gene_variant | 0.91 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269522 | c.-686C>T | upstream_gene_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4326465 | p.Ile337Val | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |