Run ID: ERR4815228
Sample name:
Date: 01-04-2023 13:44:49
Number of reads: 1110447
Percentage reads mapped: 98.97
Strain: lineage4.4.1.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 0.99 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.62 | streptomycin |
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 |
rpoB | 759901 | p.Arg32Gln | missense_variant | 0.22 |
rpoB | 759910 | p.Phe35Tyr | missense_variant | 0.15 |
rpoC | 763376 | p.Asp3Asn | missense_variant | 0.11 |
rpoC | 765228 | p.Met620Thr | missense_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776092 | p.Ser797Gly | missense_variant | 1.0 |
mmpL5 | 778480 | c.1A>G | start_lost | 0.15 |
mmpR5 | 779056 | p.Met23Leu | missense_variant | 0.17 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471775 | n.-71G>A | upstream_gene_variant | 0.17 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.5 |
inhA | 1674227 | p.Arg9Leu | missense_variant | 0.17 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
katG | 2153954 | p.Phe720Leu | missense_variant | 0.12 |
katG | 2155450 | p.Ala221Val | missense_variant | 0.12 |
katG | 2155619 | p.Ile165Val | missense_variant | 0.12 |
PPE35 | 2168630 | c.1983C>T | synonymous_variant | 0.18 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
PPE35 | 2170001 | c.612C>A | synonymous_variant | 0.11 |
Rv1979c | 2222880 | c.284dupG | frameshift_variant | 1.0 |
Rv1979c | 2223262 | c.-98C>G | upstream_gene_variant | 0.1 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289007 | p.Ala79Thr | missense_variant | 0.14 |
folC | 2746350 | c.1249C>T | synonymous_variant | 0.1 |
folC | 2747643 | c.-45G>A | upstream_gene_variant | 0.12 |
pepQ | 2860436 | c.-18C>T | upstream_gene_variant | 1.0 |
Rv2752c | 3065348 | p.Ala282Thr | missense_variant | 0.1 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448417 | c.-87C>T | upstream_gene_variant | 0.12 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612601 | c.516C>T | synonymous_variant | 0.11 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
fbiB | 3642764 | c.1230C>T | synonymous_variant | 0.13 |
alr | 3840549 | c.871delG | frameshift_variant | 0.1 |
rpoA | 3877702 | c.805delG | frameshift_variant | 0.12 |
clpC1 | 4039908 | p.Glu266Val | missense_variant | 0.14 |
panD | 4043901 | c.380delA | frameshift_variant | 0.18 |
embC | 4241925 | p.Arg688Leu | missense_variant | 0.1 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethA | 4326219 | p.Val419Ile | missense_variant | 0.14 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338621 | c.-100G>T | upstream_gene_variant | 0.11 |
gid | 4407804 | p.Ala133Gly | missense_variant | 1.0 |