Run ID: ERR4818498
Sample name:
Date: 01-04-2023 15:35:37
Number of reads: 1743317
Percentage reads mapped: 98.18
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 |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.12 | 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 | 7906 | p.Phe202Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
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 | 764551 | c.1182G>C | synonymous_variant | 0.12 |
rpoC | 764573 | p.Leu402Ile | missense_variant | 0.11 |
rpoC | 764578 | c.1209C>G | synonymous_variant | 0.11 |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.11 |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.12 |
rpoC | 764602 | c.1233C>T | synonymous_variant | 0.12 |
rpoC | 764605 | c.1236G>T | synonymous_variant | 0.11 |
rpoC | 764611 | c.1242G>T | synonymous_variant | 0.1 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472075 | n.230A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472078 | n.233C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472100 | n.259delG | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472108 | n.263C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472122 | n.277G>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472123 | n.278A>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472124 | n.279C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472155 | n.310C>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472498 | n.653C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472584 | n.739A>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472647 | n.802C>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472655 | n.810G>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472660 | n.815T>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472686 | n.841G>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472687 | n.842A>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472690 | n.845C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472692 | n.847T>C | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472707 | n.862A>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472954 | n.1109T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473080 | n.1235C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473081 | n.1236C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473093 | n.1248C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473102 | n.1257C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473130 | n.1285G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473172 | n.1327T>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473221 | n.1376C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1473276 | n.1431A>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473277 | n.1432G>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473294 | n.1449A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473300 | n.1455C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1473301 | n.1456T>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1473923 | n.266C>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475722 | n.2065G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475751 | n.2094C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1475752 | n.2095C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1475753 | n.2096C>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1475758 | n.2101A>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475760 | n.2103C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475762 | n.2105G>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475763 | n.2106C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475764 | n.2107A>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475765 | n.2108A>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475769 | n.2112T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475775 | n.2118G>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476429 | n.2772A>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.19 |
rpsA | 1834294 | c.753G>C | synonymous_variant | 0.11 |
rpsA | 1834298 | p.Gln253Glu | missense_variant | 0.11 |
rpsA | 1834306 | c.765T>C | synonymous_variant | 0.12 |
rpsA | 1834307 | p.Asp256Gln | missense_variant | 0.12 |
rpsA | 1834312 | c.771G>A | synonymous_variant | 0.12 |
rpsA | 1834327 | c.786G>T | synonymous_variant | 0.11 |
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 |
eis | 2714401 | p.Ala311Val | missense_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ahpC | 2726201 | c.9G>A | synonymous_variant | 0.98 |
Rv2752c | 3064750 | p.Arg481His | missense_variant | 1.0 |
Rv2752c | 3065005 | p.Val396Gly | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethR | 4327631 | p.Ala28Val | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |