Run ID: ERR245662
Sample name:
Date: 31-03-2023 18:13:22
Number of reads: 8698722
Percentage reads mapped: 65.12
Strain: lineage1.2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 0.99 |
lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 | 1.0 |
lineage1.2.2.1 | Indo-Oceanic | NA | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5075 | c.-165C>T | upstream_gene_variant | 1.0 |
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9780 | p.Ala827Thr | missense_variant | 1.0 |
fgd1 | 491060 | p.Met93Thr | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576614 | c.1267C>A | synonymous_variant | 1.0 |
ccsA | 620407 | p.Pro173Ala | missense_variant | 0.25 |
ccsA | 620659 | p.Arg257Cys | missense_variant | 0.99 |
ccsA | 620748 | c.858T>G | synonymous_variant | 0.19 |
rpoB | 759831 | p.Thr9Pro | missense_variant | 0.26 |
rpoB | 762249 | p.Leu815Val | missense_variant | 0.19 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.18 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
rpoC | 764725 | p.Phe452Leu | missense_variant | 0.19 |
rpoC | 767305 | p.Tyr1312* | stop_gained | 0.2 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.99 |
mmpL5 | 777399 | p.Thr361Arg | missense_variant | 0.17 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800899 | p.Ala31Thr | missense_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.17 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471842 | n.-4T>G | upstream_gene_variant | 1.0 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472215 | n.370A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472222 | n.377G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472229 | n.384C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472338 | n.493A>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472344 | n.499C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472379 | n.534T>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472382 | n.537G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472400 | n.555C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472779 | n.934G>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473020 | n.1175T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473070 | n.1225G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473161 | n.1316A>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473164 | n.1319C>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473179 | n.1334C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473226 | n.1381C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473343 | n.1498G>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1473352 | n.1507C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474199 | n.542G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474201 | n.544T>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474202 | n.545T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474218 | n.561T>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474228 | n.571T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474249 | n.592G>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474252 | n.595T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474380 | n.723G>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474831 | n.1174A>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474902 | n.1245T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474913 | n.1256T>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475363 | n.1706C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475672 | n.2015C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475673 | n.2016T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475687 | n.2030C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475696 | n.2039T>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1475703 | n.2046A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475707 | n.2050T>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475716 | n.2059A>G | non_coding_transcript_exon_variant | 0.25 |
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 | 0.29 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1475843 | n.2186G>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1475849 | n.2192G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475853 | n.2196C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476577 | n.2920T>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476595 | n.2938C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476602 | n.2945G>A | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476614 | n.2957A>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476621 | n.2964C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476624 | n.2967T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476630 | n.2973A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476637 | n.2980C>G | non_coding_transcript_exon_variant | 0.16 |
rpsA | 1834255 | c.714C>T | synonymous_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102891 | p.Phe51Ser | missense_variant | 0.2 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.23 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.26 |
ahpC | 2725954 | c.-239C>T | upstream_gene_variant | 0.21 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
folC | 2746186 | c.1413G>C | synonymous_variant | 0.26 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.22 |
thyA | 3073817 | p.Gln219Glu | missense_variant | 0.32 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339273 | c.156T>G | synonymous_variant | 0.25 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
Rv3083 | 3449058 | p.Ser185Arg | missense_variant | 0.3 |
Rv3083 | 3449673 | p.Tyr390* | stop_gained | 0.22 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fprA | 3475280 | p.Val425Gly | missense_variant | 0.24 |
Rv3236c | 3611982 | p.Ala379Pro | missense_variant | 0.49 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.28 |
alr | 3841048 | c.373C>T | synonymous_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.19 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.22 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.17 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4240750 | c.888C>T | synonymous_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embC | 4241056 | c.1194C>G | synonymous_variant | 0.32 |
embC | 4241128 | c.1266G>C | synonymous_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.38 |
embC | 4242827 | p.Leu989Val | missense_variant | 0.23 |
embA | 4245969 | p.Pro913Ser | missense_variant | 0.99 |
embB | 4247041 | c.528C>T | synonymous_variant | 0.24 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4249504 | p.Gln997His | missense_variant | 0.21 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.99 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.18 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4326439 | p.Asn345Lys | missense_variant | 1.0 |
ethR | 4327450 | c.-99G>A | upstream_gene_variant | 1.0 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.33 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |