Run ID: ERR1023494
Sample name:
Date: 31-03-2023 09:24:15
Number of reads: 2489172
Percentage reads mapped: 50.07
Strain: lineage3
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8056 | p.Arg252Leu | 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 | 762863 | c.-507T>C | upstream_gene_variant | 0.22 |
rpoB | 762872 | p.Met1022Ile | missense_variant | 0.23 |
rpoB | 762878 | p.Ile1024Met | missense_variant | 0.22 |
rpoB | 762879 | p.Met1025Leu | missense_variant | 0.21 |
rpoC | 762899 | c.-471G>C | upstream_gene_variant | 0.24 |
rpoC | 762920 | c.-450C>T | upstream_gene_variant | 0.24 |
rpoC | 762923 | c.-447C>G | upstream_gene_variant | 0.24 |
rpoB | 762925 | p.Thr1040Ile | missense_variant | 0.24 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.23 |
rpoB | 762939 | p.Met1045Leu | missense_variant | 0.23 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.23 |
rpoC | 762980 | c.-390T>C | upstream_gene_variant | 0.12 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764401 | c.1032C>T | synonymous_variant | 0.14 |
rpoC | 764405 | c.1036A>C | synonymous_variant | 0.16 |
rpoC | 764410 | c.1041G>C | synonymous_variant | 0.2 |
rpoC | 764419 | c.1050C>G | synonymous_variant | 0.21 |
rpoC | 764428 | c.1059G>C | synonymous_variant | 0.21 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.19 |
rpoC | 764435 | c.1066_1068delAGGinsCGC | synonymous_variant | 0.19 |
rpoC | 764446 | p.Asp359Glu | missense_variant | 0.2 |
rpoC | 764450 | p.Gly361Arg | missense_variant | 0.19 |
rpoC | 764461 | p.Glu364Asp | missense_variant | 0.19 |
rpoC | 764468 | p.Val367Ile | missense_variant | 0.19 |
rpoC | 764471 | p.Asn368Arg | missense_variant | 0.19 |
rpoC | 764479 | c.1110G>A | synonymous_variant | 0.19 |
rpoC | 764503 | c.1134G>C | synonymous_variant | 0.18 |
rpoC | 764509 | c.1140G>C | synonymous_variant | 0.15 |
rpoC | 764521 | c.1152T>C | synonymous_variant | 0.13 |
rpoC | 764623 | c.1254C>G | synonymous_variant | 0.15 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.16 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.15 |
rpoC | 764658 | c.1290_1291insACC | conservative_inframe_insertion | 0.15 |
rpoC | 764663 | c.1295_1296delTC | frameshift_variant | 0.15 |
rpoC | 764667 | p.Gly433Asp | missense_variant | 0.15 |
rpoC | 764671 | c.1303delC | frameshift_variant | 0.15 |
rpoC | 764677 | c.1308C>G | synonymous_variant | 0.15 |
rpoC | 764687 | p.Gln440Glu | missense_variant | 0.14 |
rpoC | 764695 | c.1326T>C | synonymous_variant | 0.15 |
rpoC | 764705 | p.Leu446Lys | missense_variant | 0.15 |
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 | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472129 | n.284G>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472135 | n.290C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472138 | n.293C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472215 | n.370A>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472715 | n.870C>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472812 | n.967A>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476266 | n.2609G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476279 | n.2622G>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476281 | n.2624T>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476339 | n.2682G>A | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476356 | n.2699C>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476384 | n.2727G>A | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476443 | n.2786G>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476455 | n.2798C>G | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476501 | n.2844C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.16 |
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 |
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 |
thyA | 3074424 | c.48G>T | synonymous_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 |
ethA | 4328212 | c.-740delC | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |