Run ID: ERR9787173
Sample name:
Date: 02-04-2023 13:04:09
Number of reads: 2775882
Percentage reads mapped: 79.27
Strain: lineage6
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage6 | 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 | 0.99 |
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 | 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 |
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 | 1472544 | n.699C>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472575 | n.730C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472591 | n.746G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472669 | n.824_825insTAGA | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472678 | n.833T>G | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472682 | n.839_843delGGGAT | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472689 | n.844C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472701 | n.856T>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.11 |
inhA | 1674434 | p.Val78Ala | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
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 |
PPE35 | 2168990 | c.1545_1622delGGCGATGACGCCAGCTAACATCACGGTGGGTGCGTTTGATTTGCCGGGGTTGACGGTGCCGTCGTTGACGATTCCAGC | disruptive_inframe_deletion | 1.0 |
PPE35 | 2169071 | c.1542A>G | synonymous_variant | 0.23 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
Rv2752c | 3066362 | c.-171G>A | upstream_gene_variant | 1.0 |
thyA | 3073693 | p.Pro260Leu | missense_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 | 3473914 | c.-93G>T | upstream_gene_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 |
fbiB | 3641106 | c.-429C>T | upstream_gene_variant | 1.0 |
alr | 3841449 | c.-29C>T | upstream_gene_variant | 1.0 |
rpoA | 3878656 | c.-149C>A | upstream_gene_variant | 0.17 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241537 | p.Gly559Ser | missense_variant | 1.0 |
embC | 4241843 | p.Leu661Ile | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_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 | 4269351 | c.-515C>T | upstream_gene_variant | 1.0 |
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 |
gid | 4408034 | p.Glu57Lys | missense_variant | 1.0 |
PPE35 | 2168990 | c.1544_1622delNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNT | frameshift_variant | 1.0 |