Run ID: ERR9786868
Sample name:
Date: 02-04-2023 12:49:08
Number of reads: 2987498
Percentage reads mapped: 99.72
Strain: lineage6.1.3;lineage4.3.4.2
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.78 |
lineage6 | West-Africa 2 | AFRI_1 | RD702 | 0.25 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.77 |
lineage6.1.3 | West-Africa 2 | AFRI_1 | RD702 | 0.25 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 0.78 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 0.76 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
embC | 4240781 | p.Ala307Thr | missense_variant | 0.31 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6446 | p.Ala403Ser | missense_variant | 0.22 |
gyrA | 6817 | c.-485G>A | upstream_gene_variant | 0.77 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8493 | p.Leu398Phe | missense_variant | 0.29 |
gyrA | 8806 | p.Asp502Gly | missense_variant | 0.25 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.18 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491668 | p.Lys296Glu | missense_variant | 0.17 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.25 |
rpoB | 760855 | p.Thr350Ile | missense_variant | 0.26 |
rpoB | 760969 | p.Ser388Leu | missense_variant | 0.21 |
rpoB | 761723 | p.Glu639Asp | missense_variant | 0.19 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.18 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.78 |
rpoC | 766231 | c.2862T>C | synonymous_variant | 0.25 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.22 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 0.22 |
fbiC | 1305494 | c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT | frameshift_variant&stop_lost&splice_region_variant | 0.17 |
Rv1258c | 1406685 | p.Val219Ala | missense_variant | 0.23 |
embR | 1416633 | p.Leu239Val | missense_variant | 0.25 |
atpE | 1461251 | c.207G>T | synonymous_variant | 0.26 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472912 | n.1067C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1473633 | n.-25C>T | upstream_gene_variant | 0.22 |
inhA | 1674434 | p.Val78Ala | missense_variant | 0.23 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.28 |
katG | 2155503 | c.609C>T | synonymous_variant | 0.27 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.28 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.28 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.21 |
eis | 2714432 | p.Val301Ile | missense_variant | 0.8 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.74 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 0.23 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087084 | c.266delA | frameshift_variant | 0.22 |
ald | 3087412 | p.Asp198Val | missense_variant | 0.27 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.26 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 0.8 |
Rv3236c | 3612143 | p.Arg325His | missense_variant | 0.18 |
rpoA | 3877740 | c.768G>C | synonymous_variant | 0.25 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.73 |
embC | 4239763 | c.-100C>T | upstream_gene_variant | 0.76 |
embC | 4240382 | p.Gly174Arg | missense_variant | 0.77 |
embC | 4240612 | c.750C>T | synonymous_variant | 0.4 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.38 |
embC | 4241843 | p.Leu661Ile | missense_variant | 0.26 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 0.25 |
embA | 4244379 | p.Pro383Ser | missense_variant | 0.22 |
embB | 4246864 | c.351C>T | synonymous_variant | 0.32 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.2 |
aftB | 4269351 | c.-515C>T | upstream_gene_variant | 0.26 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.28 |
aftB | 4269522 | c.-686C>T | upstream_gene_variant | 0.3 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.28 |
ethA | 4326465 | p.Ile337Val | missense_variant | 0.23 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338602 | c.-81A>C | upstream_gene_variant | 0.18 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.24 |
gid | 4407775 | p.Asp143Gly | missense_variant | 0.26 |
gid | 4408034 | p.Glu57Lys | missense_variant | 0.22 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.82 |