Run ID: ERR037547
Sample name:
Date: 31-03-2023 08:36:55
Number of reads: 19657066
Percentage reads mapped: 99.39
Strain: lineage4.3.4.1;lineage1.1.3.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.9 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.93 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 0.07 |
lineage1.1.3 | Indo-Oceanic | EAI6 | RD239 | 0.12 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 0.91 |
lineage1.1.3.2 | Indo-Oceanic | NA | RD239 | 0.09 |
lineage4.3.4.1 | Euro-American (LAM) | LAM1;LAM2 | RD174 | 0.9 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 0.14 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8188 | p.Leu296Pro | missense_variant | 0.11 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
ccsA | 619695 | c.-196G>A | upstream_gene_variant | 0.11 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.29 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.1 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.92 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777399 | p.Thr361Arg | missense_variant | 0.2 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800997 | p.Asn63Lys | missense_variant | 0.21 |
rplC | 801166 | p.Gly120Ser | missense_variant | 0.11 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.22 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1475363 | n.1706C>A | non_coding_transcript_exon_variant | 0.18 |
inhA | 1674892 | p.Asn231Asp | missense_variant | 0.22 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.13 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 0.13 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.16 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.32 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.13 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.23 |
eis | 2715586 | c.-254G>C | upstream_gene_variant | 0.36 |
pepQ | 2859381 | c.1038C>G | synonymous_variant | 0.2 |
Rv2752c | 3064552 | p.Arg547Pro | missense_variant | 0.21 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.25 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.93 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 0.15 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 0.91 |
fbiB | 3640614 | c.-921C>T | upstream_gene_variant | 0.93 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.22 |
fbiB | 3642734 | c.1200G>C | synonymous_variant | 0.17 |
rpoA | 3878238 | p.Asp90Glu | missense_variant | 0.16 |
ddn | 3987013 | p.Gly57Ala | missense_variant | 0.24 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.88 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.18 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.27 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 0.12 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.19 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.14 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.33 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.44 |
embC | 4242827 | p.Leu989Val | missense_variant | 0.21 |
embA | 4245329 | c.2097A>G | synonymous_variant | 0.91 |
aftB | 4269411 | c.-575T>C | upstream_gene_variant | 0.92 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.16 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.3 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 0.12 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.11 |
gid | 4407780 | c.423G>A | synonymous_variant | 0.13 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.13 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.9 |