Run ID: ERR3801626
Sample name:
Date: 01-04-2023 03:10:57
Number of reads: 6040779
Percentage reads mapped: 95.61
Strain: lineage6.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage6 | West-Africa 2 | AFRI_1 | RD702 | 1.0 |
lineage6.1 | West-Africa 2 | AFRI_1 | RD702 | 1.0 |
lineage6.1.1 | West-Africa 2 | AFRI_1 | RD702 | 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 | 8493 | p.Leu398Phe | 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 | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 760855 | p.Thr350Ile | missense_variant | 1.0 |
rpoB | 760969 | p.Ser388Leu | missense_variant | 1.0 |
rpoB | 761723 | p.Glu639Asp | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 766231 | c.2862T>C | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
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 |
Rv1258c | 1406685 | p.Val219Ala | missense_variant | 1.0 |
embR | 1416633 | p.Leu239Val | missense_variant | 1.0 |
atpE | 1461251 | c.207G>T | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472252 | n.407G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472579 | n.734G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472581 | n.736A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472599 | n.754G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472600 | n.755C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472779 | n.934G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.17 |
inhA | 1674434 | p.Val78Ala | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.99 |
katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170498 | p.Ala39Thr | missense_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
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 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
Rv3236c | 3612143 | p.Arg325His | missense_variant | 1.0 |
rpoA | 3878578 | c.-71C>A | upstream_gene_variant | 0.12 |
clpC1 | 4039674 | p.Pro344Gln | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241843 | p.Leu661Ile | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243570 | p.Thr113Arg | missense_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embA | 4244379 | p.Pro383Ser | missense_variant | 1.0 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4267610 | c.1227C>T | synonymous_variant | 1.0 |
aftB | 4269351 | c.-515C>T | upstream_gene_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269522 | c.-686C>G | upstream_gene_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.99 |
ethA | 4326465 | p.Ile337Val | missense_variant | 1.0 |
ethR | 4328051 | p.Ala168Val | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408034 | p.Glu57Lys | missense_variant | 1.0 |