Run ID: ERR751310
Sample name:
Date: 02-04-2023 04:24:15
Number of reads: 3345612
Percentage reads mapped: 65.37
Strain: lineage5.1.3
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage5 | West-Africa 1 | AFRI_2;AFRI_3 | RD711 | 1.0 |
lineage5.1.3 | West-Africa 1 | AFRI_2;AFRI_3 | RD711 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9566 | c.2265C>T | synonymous_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764335 | c.966G>A | synonymous_variant | 1.0 |
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 |
rpsL | 781676 | c.117C>T | synonymous_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
Rv1258c | 1407273 | p.Asp23Val | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472129 | n.284G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472164 | n.319G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472253 | n.408G>C | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472271 | n.426T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472579 | n.734G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472599 | n.754G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472606 | n.761C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472645 | n.800G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472733 | n.888G>C | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472742 | n.897C>G | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472779 | n.934G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1473005 | n.1160C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473054 | n.1209C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473083 | n.1238G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.28 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474831 | n.1174A>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.34 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.35 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1474913 | n.1256T>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1475866 | n.2209T>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476265 | n.2608G>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.66 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476427 | n.2770G>T | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.22 |
inhA | 1673338 | c.-864G>A | upstream_gene_variant | 1.0 |
tlyA | 1917800 | c.-140A>G | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.95 |
ndh | 2101921 | c.1122G>A | synonymous_variant | 1.0 |
ndh | 2103112 | c.-70G>T | upstream_gene_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290062 | c.-821G>A | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
ald | 3087184 | c.368_373delCCGACG | disruptive_inframe_deletion | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
alr | 3840932 | c.489C>T | synonymous_variant | 1.0 |
rpoA | 3878493 | c.15G>A | synonymous_variant | 1.0 |
ddn | 3986987 | c.144G>T | synonymous_variant | 1.0 |
ddn | 3987180 | p.Asp113Asn | missense_variant | 1.0 |
clpC1 | 4040824 | c.-120C>T | upstream_gene_variant | 1.0 |
embC | 4239843 | c.-20A>C | upstream_gene_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.98 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embA | 4244635 | p.Val468Ala | missense_variant | 0.99 |
embA | 4245147 | p.Pro639Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethR | 4326928 | c.-621G>A | upstream_gene_variant | 1.0 |
ethA | 4327103 | p.Gly124Asp | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |