Run ID: ERR2514486
Sample name:
Date: 31-03-2023 20:22:08
Number of reads: 667445
Percentage reads mapped: 99.6
Strain: lineage4.1.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9711 | p.Met804Leu | missense_variant | 0.15 |
fgd1 | 491304 | c.522C>T | synonymous_variant | 0.13 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575270 | c.-78G>T | upstream_gene_variant | 0.11 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
mshA | 576715 | c.1368C>T | synonymous_variant | 1.0 |
ccsA | 619771 | c.-120C>A | upstream_gene_variant | 0.17 |
ccsA | 620748 | c.858T>G | synonymous_variant | 0.31 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoB | 760733 | p.Lys309Asn | missense_variant | 0.11 |
rpoB | 760756 | p.His317Arg | missense_variant | 0.12 |
rpoB | 760832 | p.Leu342Phe | missense_variant | 0.12 |
rpoB | 762233 | c.2427G>A | synonymous_variant | 0.12 |
rpoC | 764592 | p.Gly408Val | missense_variant | 0.11 |
rpoC | 764705 | p.Leu446Met | missense_variant | 0.12 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775634 | c.2847G>T | synonymous_variant | 0.33 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 778166 | c.-824G>T | upstream_gene_variant | 0.11 |
mmpS5 | 778737 | p.Glu57* | stop_gained | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781419 | c.-140delC | upstream_gene_variant | 0.11 |
fbiC | 1303911 | c.981G>A | synonymous_variant | 0.12 |
embR | 1416512 | p.Gln279Pro | missense_variant | 0.12 |
atpE | 1461084 | p.Gly14Arg | missense_variant | 0.25 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472049 | n.204G>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476288 | n.2631T>G | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918149 | c.210A>T | synonymous_variant | 0.11 |
tlyA | 1918219 | p.Gly94Ser | missense_variant | 0.12 |
ndh | 2102937 | p.Ala36Pro | missense_variant | 0.11 |
katG | 2155605 | c.507C>T | synonymous_variant | 0.13 |
PPE35 | 2170197 | p.Ala139Glu | missense_variant | 0.2 |
Rv1979c | 2223044 | p.Gly41Trp | missense_variant | 0.15 |
Rv1979c | 2223229 | c.-65T>C | upstream_gene_variant | 0.29 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289006 | p.Ala79Val | missense_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
kasA | 2518545 | p.Met144Thr | missense_variant | 0.13 |
kasA | 2518739 | p.Ala209Thr | missense_variant | 0.13 |
eis | 2714276 | p.Arg353Trp | missense_variant | 0.12 |
folC | 2746153 | c.1446C>T | synonymous_variant | 0.2 |
folC | 2746400 | p.Ser400Tyr | missense_variant | 0.12 |
Rv2752c | 3065413 | p.Ser260Trp | missense_variant | 0.18 |
Rv2752c | 3065744 | p.Thr150Ala | missense_variant | 0.15 |
thyA | 3074453 | p.Leu7Met | missense_variant | 0.17 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448891 | p.Thr130Ala | missense_variant | 0.25 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474075 | c.69G>A | synonymous_variant | 0.2 |
fprA | 3474143 | p.Trp46Tyr | missense_variant | 0.15 |
fprA | 3474165 | c.159C>G | synonymous_variant | 0.12 |
fprA | 3474747 | p.Gln247His | missense_variant | 0.18 |
whiB7 | 3568713 | c.-34C>T | upstream_gene_variant | 0.15 |
Rv3236c | 3612248 | p.Met290Thr | missense_variant | 0.11 |
fbiA | 3641422 | p.Asp294Asn | missense_variant | 0.11 |
alr | 3840964 | p.Thr153Ser | missense_variant | 0.13 |
alr | 3841173 | p.Gly83Glu | missense_variant | 0.22 |
rpoA | 3878002 | p.Ser169* | stop_gained | 0.14 |
ddn | 3986647 | c.-197T>G | upstream_gene_variant | 0.14 |
clpC1 | 4039180 | p.Arg509Gly | missense_variant | 0.15 |
clpC1 | 4039293 | p.Gly471Asp | missense_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embA | 4244893 | p.Gly554Asp | missense_variant | 0.17 |
embB | 4246205 | c.-309A>G | upstream_gene_variant | 0.1 |
embB | 4247011 | c.498C>T | synonymous_variant | 0.13 |
embB | 4247516 | p.Asn335Asp | missense_variant | 0.12 |
embB | 4249166 | p.Gly885Ser | missense_variant | 0.13 |
embB | 4249721 | p.Leu1070Met | missense_variant | 0.11 |
aftB | 4266961 | p.Arg626Trp | missense_variant | 0.11 |
aftB | 4267016 | c.1821C>G | synonymous_variant | 0.12 |
aftB | 4268251 | p.Ala196Ser | missense_variant | 0.2 |
ethA | 4327104 | p.Gly124Arg | missense_variant | 0.12 |
ethR | 4327864 | p.Gly106Arg | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |