Run ID: ERR4815341
Sample name:
Date: 01-04-2023 13:48:46
Number of reads: 2330535
Percentage reads mapped: 99.35
Strain: lineage3.1.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 | 1.0 |
lineage3.1.2 | East-African-Indian | CAS;CAS2 | RD750 | 1.0 |
lineage3.1.2.1 | East-African-Indian | CAS2 | RD750 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.33 | 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 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576751 | p.Lys468Asn | missense_variant | 0.26 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 766479 | p.Ala1037Val | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775946 | c.2535C>T | synonymous_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777053 | c.1428G>A | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472549 | n.704G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472581 | n.736A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472584 | n.739A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472647 | n.802C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472655 | n.810G>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472660 | n.815T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472679 | n.834T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472687 | n.842A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472954 | n.1109T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474249 | n.592G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476087 | n.2430C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476405 | n.2748C>T | non_coding_transcript_exon_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168604 | p.Pro670Leu | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612529 | c.588C>T | synonymous_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4267885 | p.Ser318Gly | missense_variant | 1.0 |
whiB6 | 4338594 | c.-73T>A | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |