Run ID: ERR4821561
Sample name:
Date: 01-04-2023 17:19:26
Number of reads: 1763542
Percentage reads mapped: 86.54
Strain: lineage4.6.2.2
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.6 | Euro-American | T;LAM | None | 1.0 |
lineage4.6.2 | Euro-American | T;LAM | RD726 | 1.0 |
lineage4.6.2.2 | Euro-American (Cameroon) | LAM10-CAM | RD726 | 1.0 |
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 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 778298 | c.-692C>T | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472487 | n.643dupT | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.76 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.81 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.84 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.84 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.85 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472681 | n.837_838delTT | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472687 | n.842_843insC | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.94 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.97 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.96 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472827 | n.982G>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472828 | n.983T>C | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472892 | n.1047T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472951 | n.1106T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472953 | n.1108G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473161 | n.1316A>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473164 | n.1319C>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473199 | n.1356delA | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155389 | c.723C>G | synonymous_variant | 1.0 |
Rv1979c | 2221746 | c.1416_1418dupCCG | disruptive_inframe_insertion | 0.91 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyX | 3067474 | p.Pro158Ala | missense_variant | 1.0 |
Rv3083 | 3448567 | p.His22Asp | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612571 | c.546C>T | synonymous_variant | 1.0 |
Rv3236c | 3612910 | p.Leu69Phe | missense_variant | 1.0 |
embA | 4242550 | c.-683C>G | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4267272 | p.Lys522Arg | missense_variant | 1.0 |
ethR | 4326739 | c.-810G>C | upstream_gene_variant | 1.0 |
ethA | 4328004 | c.-531C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |