Run ID: ERR2229486
Sample name:
Date: 31-03-2023 17:14:29
Number of reads: 573095
Percentage reads mapped: 99.37
Strain: lineage4.8
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
ethA | 4326426 | c.1047delT | frameshift_variant | 0.17 | ethionamide, ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6103 | p.Glu288Asp | missense_variant | 0.11 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoB | 761059 | p.Val418Asp | missense_variant | 0.33 |
rpoB | 762436 | p.Asp877Val | missense_variant | 0.29 |
rpoB | 763256 | c.3451delC | frameshift_variant | 0.2 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775782 | p.Leu900Pro | missense_variant | 0.29 |
mmpL5 | 777482 | c.999G>A | synonymous_variant | 0.16 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781529 | c.-31C>T | upstream_gene_variant | 0.17 |
fbiC | 1303734 | c.804C>A | synonymous_variant | 0.2 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476483 | n.2826G>A | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.2 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.2 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.19 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.44 |
fabG1 | 1673825 | p.Arg129Leu | missense_variant | 0.18 |
inhA | 1674472 | p.Val91Leu | missense_variant | 0.18 |
rpsA | 1833567 | p.Pro9Leu | missense_variant | 0.17 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918034 | p.Val32Gly | missense_variant | 0.67 |
ndh | 2102875 | c.168C>T | synonymous_variant | 0.14 |
ndh | 2103206 | c.-164T>C | upstream_gene_variant | 0.11 |
PPE35 | 2167955 | c.2658A>C | synonymous_variant | 0.22 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.22 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.22 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2168803 | p.Gly604* | stop_gained | 0.12 |
PPE35 | 2169091 | p.Val508Leu | missense_variant | 0.17 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.17 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.17 |
PPE35 | 2169717 | p.Asn299Ile | missense_variant | 0.24 |
PPE35 | 2169725 | c.888T>C | synonymous_variant | 0.26 |
PPE35 | 2169902 | c.711G>C | synonymous_variant | 0.12 |
PPE35 | 2169939 | p.Gly225Ala | missense_variant | 0.11 |
PPE35 | 2169947 | c.666T>C | synonymous_variant | 0.11 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.54 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.57 |
PPE35 | 2170232 | c.381T>A | synonymous_variant | 0.2 |
PPE35 | 2170430 | p.Ser61Ala | missense_variant | 0.12 |
PPE35 | 2170434 | p.Arg60Pro | missense_variant | 0.12 |
PPE35 | 2170440 | p.Gln58Ser | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518873 | p.His253Gln | missense_variant | 0.17 |
eis | 2714498 | p.Leu279Ile | missense_variant | 0.25 |
Rv2752c | 3065342 | p.Ser284Thr | missense_variant | 0.2 |
thyX | 3067744 | p.Gly68Arg | missense_variant | 0.12 |
thyA | 3074648 | c.-177T>G | upstream_gene_variant | 0.29 |
fbiB | 3641668 | p.Val45Ala | missense_variant | 0.29 |
fbiB | 3642650 | c.1118dupT | frameshift_variant | 0.17 |
alr | 3840569 | c.852G>T | synonymous_variant | 0.22 |
alr | 3840637 | p.Pro262Ser | missense_variant | 0.12 |
alr | 3840899 | c.522C>A | synonymous_variant | 0.21 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.16 |
rpoA | 3878469 | c.39C>G | synonymous_variant | 0.25 |
ddn | 3986829 | c.-15G>T | upstream_gene_variant | 0.22 |
clpC1 | 4039051 | p.Ala552Thr | missense_variant | 0.18 |
clpC1 | 4039153 | p.Ile518Val | missense_variant | 0.11 |
clpC1 | 4039161 | p.His515Gly | missense_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242782 | p.Val974Leu | missense_variant | 0.29 |
embA | 4244031 | p.Ile267Val | missense_variant | 0.29 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.19 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.31 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.33 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.33 |
aftB | 4267415 | c.1422G>T | synonymous_variant | 0.12 |
ubiA | 4269134 | p.Gly234Arg | missense_variant | 0.13 |
ethR | 4326982 | c.-567C>G | upstream_gene_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408249 | c.-47T>A | upstream_gene_variant | 0.33 |