Run ID: ERR216901
Sample name:
Date: 31-03-2023 15:55:04
Number of reads: 923929
Percentage reads mapped: 11.01
Strain: lineage3.1.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 0.99 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 | 1.0 |
lineage3.1.1 | East-African-Indian | CAS1-Kili | RD750 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.71 | 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 | 8941 | p.Ala547Val | missense_variant | 0.12 |
gyrA | 9059 | c.1758G>A | synonymous_variant | 0.11 |
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 | 766904 | p.Ser1179Thr | missense_variant | 0.18 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777160 | p.Ala441Thr | missense_variant | 0.13 |
mmpR5 | 779392 | p.Arg135Trp | missense_variant | 0.18 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303656 | c.726G>A | synonymous_variant | 0.13 |
Rv1258c | 1406767 | p.Gln192Lys | missense_variant | 0.12 |
embR | 1417527 | c.-180A>G | upstream_gene_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.83 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.83 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.85 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472223 | n.378C>G | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472228 | n.383G>C | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.66 |
rrs | 1472277 | n.432C>G | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472282 | n.437T>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472544 | n.699C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472574 | n.729T>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472579 | n.734G>A | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472591 | n.746G>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472599 | n.754G>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472600 | n.755C>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472705 | n.860G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472708 | n.863T>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472779 | n.934G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472825 | n.980G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472990 | n.1145A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473000 | n.1155G>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1473005 | n.1160C>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473010 | n.1165C>G | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.42 |
rrs | 1473080 | n.1235C>G | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473082 | n.1237G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473091 | n.1246G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475781 | n.2124T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475843 | n.2186G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475853 | n.2196C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1475874 | n.2217C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476337 | n.2680C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.85 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476572 | n.2915G>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476573 | n.2916A>G | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476603 | n.2946G>A | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476614 | n.2957A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476621 | n.2964C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476624 | n.2967T>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476625 | n.2968C>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476630 | n.2973A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476637 | n.2980C>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476657 | n.3000G>T | non_coding_transcript_exon_variant | 0.14 |
inhA | 1673718 | c.-484G>C | upstream_gene_variant | 0.12 |
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 | 2169320 | p.Leu431Phe | missense_variant | 0.34 |
PPE35 | 2170461 | p.Gly51Glu | 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 |
kasA | 2518731 | p.Pro206His | missense_variant | 0.14 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.36 |
ahpC | 2726586 | p.Asp132His | missense_variant | 0.13 |
folC | 2746605 | p.Ala332Thr | missense_variant | 0.25 |
pepQ | 2860137 | p.Lys94Asn | missense_variant | 1.0 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.2 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.25 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3840544 | p.Val293Met | missense_variant | 0.2 |
rpoA | 3878569 | c.-62C>G | upstream_gene_variant | 0.18 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.18 |
clpC1 | 4040016 | p.Ala230Val | missense_variant | 0.12 |
embC | 4240172 | p.Val104Met | missense_variant | 1.0 |
embC | 4241562 | p.Arg567His | missense_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.19 |
embA | 4242853 | c.-380C>T | upstream_gene_variant | 0.12 |
embB | 4247080 | c.567C>T | synonymous_variant | 0.14 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |