Run ID: ERR9786528
Sample name:
Date: 02-04-2023 12:30:30
Number of reads: 1114197
Percentage reads mapped: 81.46
Strain: lineage4.6.2.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.6 | Euro-American | T;LAM | None | 1.0 |
lineage4.6.2 | Euro-American | T;LAM | RD726 | 1.0 |
lineage4.6.2.2 | Euro-American (Cameroon) | LAM10-CAM | RD726 | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 761627 | c.1821C>T | synonymous_variant | 0.12 |
rpoB | 761633 | c.1827G>C | synonymous_variant | 0.14 |
rpoB | 761650 | p.Ser615Asn | missense_variant | 0.13 |
rpoB | 761655 | p.Ala617Ser | missense_variant | 0.13 |
rpoB | 761666 | c.1860G>C | synonymous_variant | 0.12 |
rpoB | 761675 | c.1869G>T | synonymous_variant | 0.13 |
rpoB | 762114 | p.Ile770Val | missense_variant | 0.12 |
rpoB | 762128 | c.2322G>C | synonymous_variant | 0.13 |
rpoB | 762137 | c.2331C>T | synonymous_variant | 0.15 |
rpoB | 762140 | c.2334G>C | synonymous_variant | 0.12 |
rpoB | 762143 | c.2337T>C | synonymous_variant | 0.14 |
rpoB | 762149 | c.2343G>C | synonymous_variant | 0.15 |
rpoB | 762161 | c.2355C>T | synonymous_variant | 0.15 |
rpoB | 762176 | c.2370T>C | synonymous_variant | 0.11 |
rpoB | 762185 | c.2379G>C | synonymous_variant | 0.11 |
rpoC | 764134 | c.765C>G | synonymous_variant | 0.14 |
rpoC | 764143 | c.774G>C | synonymous_variant | 0.16 |
rpoC | 764147 | p.Ser260Ala | missense_variant | 0.16 |
rpoC | 764153 | p.Gln262Lys | missense_variant | 0.17 |
rpoC | 764161 | c.792G>C | synonymous_variant | 0.16 |
rpoC | 764162 | p.Ile265Leu | missense_variant | 0.15 |
rpoC | 764188 | c.819A>G | synonymous_variant | 0.16 |
rpoC | 764197 | c.828G>C | synonymous_variant | 0.17 |
rpoC | 764203 | c.834G>C | synonymous_variant | 0.16 |
rpoC | 764206 | p.Asp279Glu | missense_variant | 0.16 |
rpoC | 764207 | p.Val280Thr | missense_variant | 0.16 |
rpoC | 764215 | c.846A>C | synonymous_variant | 0.16 |
rpoC | 764217 | p.Asn283Ser | missense_variant | 0.16 |
rpoC | 764227 | c.858G>A | synonymous_variant | 0.16 |
rpoC | 764239 | c.870T>G | synonymous_variant | 0.17 |
rpoC | 764242 | c.873C>T | synonymous_variant | 0.17 |
rpoC | 764245 | c.876C>G | synonymous_variant | 0.18 |
rpoC | 764254 | c.885G>A | synonymous_variant | 0.2 |
rpoC | 764263 | c.894G>C | synonymous_variant | 0.2 |
rpoC | 764266 | c.897T>C | synonymous_variant | 0.2 |
rpoC | 764278 | c.909A>G | synonymous_variant | 0.2 |
rpoC | 764284 | c.915G>C | synonymous_variant | 0.2 |
rpoC | 764297 | p.Met310Leu | missense_variant | 0.18 |
rpoC | 764320 | c.951C>G | synonymous_variant | 0.17 |
rpoC | 764341 | c.972G>C | synonymous_variant | 0.15 |
rpoC | 764344 | c.975C>T | synonymous_variant | 0.15 |
rpoC | 764407 | p.Arg346Ser | missense_variant | 0.11 |
rpoC | 764428 | c.1059G>C | synonymous_variant | 0.11 |
rpoC | 764431 | c.1062G>C | synonymous_variant | 0.11 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.11 |
rpoC | 764437 | c.1068G>A | synonymous_variant | 0.12 |
rpoC | 764446 | c.1077T>C | synonymous_variant | 0.14 |
rpoC | 764449 | c.1080G>C | synonymous_variant | 0.14 |
rpoC | 764455 | c.1086G>A | synonymous_variant | 0.16 |
rpoC | 764458 | c.1089G>C | synonymous_variant | 0.18 |
rpoC | 764461 | c.1092A>G | synonymous_variant | 0.18 |
rpoC | 764497 | c.1128A>G | synonymous_variant | 0.2 |
rpoC | 764500 | c.1131C>G | synonymous_variant | 0.18 |
rpoC | 764503 | c.1134G>C | synonymous_variant | 0.17 |
rpoC | 764509 | c.1140G>T | synonymous_variant | 0.21 |
rpoC | 764536 | c.1167G>T | synonymous_variant | 0.16 |
rpoC | 764539 | c.1170C>G | synonymous_variant | 0.17 |
rpoC | 764545 | c.1176C>G | synonymous_variant | 0.18 |
rpoC | 764548 | c.1179G>A | synonymous_variant | 0.2 |
rpoC | 764560 | c.1191T>C | synonymous_variant | 0.2 |
rpoC | 764575 | c.1206T>G | synonymous_variant | 0.21 |
rpoC | 764578 | c.1209C>G | synonymous_variant | 0.21 |
rpoC | 764602 | c.1233C>T | synonymous_variant | 0.19 |
rpoC | 764605 | c.1236G>T | synonymous_variant | 0.17 |
rpoC | 764611 | c.1242G>T | synonymous_variant | 0.17 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.18 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.18 |
rpoC | 764662 | c.1293G>C | synonymous_variant | 0.16 |
rpoC | 764668 | c.1299C>T | synonymous_variant | 0.17 |
rpoC | 764686 | c.1317C>T | synonymous_variant | 0.16 |
rpoC | 764701 | c.1332C>G | synonymous_variant | 0.16 |
rpoC | 764713 | c.1344G>A | synonymous_variant | 0.14 |
rpoC | 764716 | c.1347G>C | synonymous_variant | 0.14 |
rpoC | 764746 | c.1377G>T | synonymous_variant | 0.12 |
rpoC | 764749 | c.1380G>C | synonymous_variant | 0.12 |
rpoC | 764752 | c.1383G>C | synonymous_variant | 0.14 |
rpoC | 764758 | c.1389C>G | synonymous_variant | 0.14 |
rpoC | 764764 | p.His465Gln | missense_variant | 0.16 |
rpoC | 764767 | c.1398G>A | synonymous_variant | 0.18 |
rpoC | 764797 | c.1428G>C | synonymous_variant | 0.18 |
rpoC | 764803 | c.1434C>G | synonymous_variant | 0.17 |
rpoC | 764824 | c.1455T>C | synonymous_variant | 0.15 |
rpoC | 764858 | c.1489T>C | synonymous_variant | 0.14 |
rpoC | 764863 | c.1494G>C | synonymous_variant | 0.15 |
rpoC | 764869 | c.1500C>T | synonymous_variant | 0.14 |
rpoC | 764872 | c.1503A>G | synonymous_variant | 0.12 |
rpoC | 764888 | c.1519T>C | synonymous_variant | 0.12 |
rpoC | 764893 | c.1524T>C | synonymous_variant | 0.12 |
rpoC | 764902 | c.1533C>G | synonymous_variant | 0.11 |
rpoC | 764911 | c.1542A>G | synonymous_variant | 0.12 |
rpoC | 764912 | p.Met515Leu | missense_variant | 0.12 |
rpoC | 764917 | c.1548G>C | synonymous_variant | 0.12 |
rpoC | 764920 | c.1551G>C | synonymous_variant | 0.12 |
rpoC | 764923 | c.1554A>G | synonymous_variant | 0.12 |
rpoC | 764935 | c.1566T>C | synonymous_variant | 0.13 |
rpoC | 764939 | c.1570C>T | synonymous_variant | 0.13 |
rpoC | 764948 | c.1579_1581delTTGinsCTC | synonymous_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 778298 | c.-692C>T | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472382 | n.537G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472422 | n.577T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472435 | n.590T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472471 | n.626G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472489 | n.644A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472497 | n.652G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472677 | n.832C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472680 | n.835C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472682 | n.837T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472683 | n.838T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472686 | n.841G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473081 | n.1236C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473099 | n.1254T>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473130 | n.1285G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1473828 | n.171_172insCT | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473832 | n.175C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473835 | n.179delA | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473844 | n.187C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474709 | n.1053_1056delTGGT | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474721 | n.1064G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474722 | n.1065T>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474734 | n.1077G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474740 | n.1083G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474747 | n.1090C>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474749 | n.1092C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474753 | n.1097delC | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476086 | n.2429G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476088 | n.2431A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476099 | n.2442A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476105 | n.2450delA | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476115 | n.2458T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476131 | n.2474C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476251 | n.2594T>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476256 | n.2599A>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476297 | n.2640C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476298 | n.2641C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476309 | n.2652G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.16 |
rpsA | 1833838 | c.297G>C | synonymous_variant | 0.12 |
rpsA | 1833847 | c.306C>G | synonymous_variant | 0.13 |
rpsA | 1833856 | c.315A>G | synonymous_variant | 0.13 |
rpsA | 1833862 | c.321G>T | synonymous_variant | 0.12 |
rpsA | 1833894 | p.Ala118Glu | missense_variant | 0.14 |
rpsA | 1833904 | c.363G>A | synonymous_variant | 0.13 |
rpsA | 1833928 | c.387G>C | synonymous_variant | 0.16 |
rpsA | 1833949 | c.408T>C | synonymous_variant | 0.15 |
rpsA | 1833961 | c.420C>G | synonymous_variant | 0.15 |
rpsA | 1833970 | c.429G>C | synonymous_variant | 0.12 |
rpsA | 1833979 | c.438T>C | synonymous_variant | 0.12 |
rpsA | 1833985 | c.444G>C | synonymous_variant | 0.11 |
rpsA | 1833988 | c.447C>G | synonymous_variant | 0.12 |
rpsA | 1833991 | c.450C>A | synonymous_variant | 0.12 |
rpsA | 1833997 | c.456G>C | synonymous_variant | 0.12 |
rpsA | 1834009 | c.468C>T | synonymous_variant | 0.13 |
rpsA | 1834012 | c.471G>C | synonymous_variant | 0.13 |
rpsA | 1834021 | c.480C>T | synonymous_variant | 0.13 |
rpsA | 1834030 | c.489C>G | synonymous_variant | 0.13 |
rpsA | 1834051 | c.510G>A | synonymous_variant | 0.13 |
rpsA | 1834066 | c.525G>A | synonymous_variant | 0.11 |
rpsA | 1834069 | c.528G>C | synonymous_variant | 0.11 |
rpsA | 1834294 | c.753G>T | synonymous_variant | 0.12 |
rpsA | 1834299 | p.Gln253Pro | missense_variant | 0.11 |
rpsA | 1834327 | c.786G>C | synonymous_variant | 0.11 |
rpsA | 1834357 | c.816T>G | synonymous_variant | 0.12 |
rpsA | 1834366 | c.825A>G | synonymous_variant | 0.12 |
rpsA | 1834375 | c.834G>A | synonymous_variant | 0.12 |
rpsA | 1834396 | c.855G>T | synonymous_variant | 0.12 |
rpsA | 1834399 | p.His286Gln | missense_variant | 0.12 |
rpsA | 1834411 | c.870T>C | synonymous_variant | 0.14 |
rpsA | 1834423 | c.882G>T | synonymous_variant | 0.15 |
rpsA | 1834451 | c.910T>C | synonymous_variant | 0.16 |
rpsA | 1834468 | c.927A>G | synonymous_variant | 0.14 |
rpsA | 1834483 | p.Glu314Asp | missense_variant | 0.16 |
rpsA | 1834486 | p.Glu315Asp | missense_variant | 0.15 |
rpsA | 1834489 | c.948T>C | synonymous_variant | 0.16 |
rpsA | 1834498 | c.957C>T | synonymous_variant | 0.18 |
rpsA | 1834540 | c.999G>T | synonymous_variant | 0.19 |
rpsA | 1834543 | c.1002C>G | synonymous_variant | 0.2 |
rpsA | 1834546 | c.1005T>C | synonymous_variant | 0.19 |
rpsA | 1834552 | c.1011G>T | synonymous_variant | 0.2 |
rpsA | 1834555 | c.1014T>C | synonymous_variant | 0.2 |
rpsA | 1834600 | c.1059G>C | synonymous_variant | 0.14 |
rpsA | 1834606 | c.1065C>T | synonymous_variant | 0.14 |
rpsA | 1834612 | c.1071G>T | synonymous_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2221746 | c.1416_1418dupCCG | disruptive_inframe_insertion | 0.97 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyX | 3067474 | p.Pro158Ala | missense_variant | 1.0 |
Rv3083 | 3448567 | p.His22Asp | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612571 | c.546C>T | synonymous_variant | 1.0 |
rpoA | 3877629 | c.879C>G | synonymous_variant | 0.15 |
rpoA | 3877656 | c.852T>C | synonymous_variant | 0.15 |
rpoA | 3877662 | c.846C>T | synonymous_variant | 0.12 |
rpoA | 3877668 | c.840A>G | synonymous_variant | 0.14 |
rpoA | 3877677 | c.831G>C | synonymous_variant | 0.15 |
rpoA | 3877680 | c.828G>T | synonymous_variant | 0.15 |
rpoA | 3877686 | c.822A>G | synonymous_variant | 0.15 |
rpoA | 3877692 | c.816G>C | synonymous_variant | 0.16 |
rpoA | 3877704 | c.804G>T | synonymous_variant | 0.13 |
rpoA | 3877728 | c.780C>G | synonymous_variant | 0.14 |
rpoA | 3877731 | c.777G>T | synonymous_variant | 0.14 |
rpoA | 3877734 | c.774G>C | synonymous_variant | 0.15 |
rpoA | 3877737 | c.771G>C | synonymous_variant | 0.16 |
rpoA | 3877749 | c.759C>T | synonymous_variant | 0.16 |
rpoA | 3877752 | p.Asp252Glu | missense_variant | 0.17 |
rpoA | 3877765 | p.Ala248Ser | missense_variant | 0.16 |
rpoA | 3877770 | c.738A>G | synonymous_variant | 0.16 |
rpoA | 3877776 | c.732T>C | synonymous_variant | 0.15 |
rpoA | 3877782 | c.726T>C | synonymous_variant | 0.17 |
rpoA | 3877785 | c.723C>T | synonymous_variant | 0.17 |
rpoA | 3877791 | c.717C>G | synonymous_variant | 0.17 |
rpoA | 3877794 | c.714G>T | synonymous_variant | 0.17 |
rpoA | 3877815 | c.693C>A | synonymous_variant | 0.17 |
rpoA | 3877818 | c.690A>G | synonymous_variant | 0.17 |
rpoA | 3877842 | c.666A>T | synonymous_variant | 0.14 |
rpoA | 3877848 | c.660C>T | synonymous_variant | 0.14 |
rpoA | 3877887 | c.621G>C | synonymous_variant | 0.12 |
clpC1 | 4038953 | c.1752A>G | synonymous_variant | 0.12 |
clpC1 | 4038956 | c.1749T>C | synonymous_variant | 0.12 |
clpC1 | 4038965 | c.1740T>C | synonymous_variant | 0.14 |
clpC1 | 4038971 | c.1734T>C | synonymous_variant | 0.16 |
clpC1 | 4038974 | c.1731T>C | synonymous_variant | 0.17 |
clpC1 | 4038986 | p.Asp573Glu | missense_variant | 0.17 |
clpC1 | 4038997 | c.1708T>C | synonymous_variant | 0.15 |
clpC1 | 4039004 | c.1701C>G | synonymous_variant | 0.15 |
clpC1 | 4039007 | c.1698G>C | synonymous_variant | 0.16 |
clpC1 | 4039022 | c.1683A>G | synonymous_variant | 0.18 |
clpC1 | 4039040 | c.1665C>G | synonymous_variant | 0.16 |
clpC1 | 4039046 | c.1659C>A | synonymous_variant | 0.16 |
clpC1 | 4039070 | c.1635G>C | synonymous_variant | 0.17 |
clpC1 | 4039073 | c.1632C>T | synonymous_variant | 0.17 |
clpC1 | 4039079 | c.1626C>G | synonymous_variant | 0.16 |
clpC1 | 4039085 | c.1620A>G | synonymous_variant | 0.16 |
clpC1 | 4039090 | c.1615C>T | synonymous_variant | 0.13 |
clpC1 | 4039097 | c.1608G>T | synonymous_variant | 0.13 |
clpC1 | 4039100 | c.1605C>G | synonymous_variant | 0.13 |
clpC1 | 4039106 | c.1599G>C | synonymous_variant | 0.13 |
clpC1 | 4039654 | p.Thr351Ser | missense_variant | 0.17 |
clpC1 | 4039661 | c.1044T>C | synonymous_variant | 0.13 |
clpC1 | 4039664 | c.1041G>C | synonymous_variant | 0.13 |
clpC1 | 4039670 | c.1035G>C | synonymous_variant | 0.12 |
clpC1 | 4039682 | c.1023C>G | synonymous_variant | 0.12 |
embA | 4242550 | c.-683C>G | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4267272 | p.Lys522Arg | missense_variant | 1.0 |
ethR | 4326739 | c.-810G>C | upstream_gene_variant | 1.0 |
ethA | 4328004 | c.-531C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |