Run ID: ERR11082350
Sample name:
Date: 10-04-2023 12:02:23
Number of reads: 3497294
Percentage reads mapped: 97.04
Strain: lineage4.6.2.2
Drug-resistance: MDR-TB
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 | 0.99 |
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 |
---|---|---|---|---|---|
rpoB | 761110 | p.Asp435Val | missense_variant | 0.97 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
gid | 4408087 | c.115delC | frameshift_variant | 1.0 | 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 | 8619 | c.1318T>C | synonymous_variant | 0.14 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
ccsA | 620271 | c.381C>G | synonymous_variant | 0.12 |
ccsA | 620307 | c.417C>G | synonymous_variant | 0.13 |
ccsA | 620317 | p.Val143Leu | missense_variant | 0.15 |
ccsA | 620343 | c.453G>C | synonymous_variant | 0.15 |
ccsA | 620712 | c.822G>C | synonymous_variant | 0.13 |
rpoB | 760101 | c.295T>C | synonymous_variant | 0.13 |
rpoB | 760916 | c.1110C>G | synonymous_variant | 0.16 |
rpoB | 760919 | c.1113C>G | synonymous_variant | 0.16 |
rpoB | 760925 | c.1119T>C | synonymous_variant | 0.14 |
rpoB | 760928 | c.1122G>C | synonymous_variant | 0.15 |
rpoB | 760931 | c.1125C>G | synonymous_variant | 0.15 |
rpoB | 760937 | c.1131G>A | synonymous_variant | 0.16 |
rpoB | 760946 | c.1140A>G | synonymous_variant | 0.16 |
rpoB | 760973 | c.1167G>C | synonymous_variant | 0.15 |
rpoB | 760982 | c.1176G>T | synonymous_variant | 0.14 |
rpoB | 760985 | c.1179G>T | synonymous_variant | 0.14 |
rpoB | 760991 | c.1185G>T | synonymous_variant | 0.13 |
rpoB | 762167 | c.2361T>C | synonymous_variant | 0.13 |
rpoC | 763441 | c.72C>T | synonymous_variant | 0.14 |
rpoC | 763444 | c.75T>C | synonymous_variant | 0.14 |
rpoC | 763456 | c.87A>G | synonymous_variant | 0.17 |
rpoC | 763486 | c.117T>G | synonymous_variant | 0.17 |
rpoC | 763771 | c.402C>T | synonymous_variant | 0.13 |
rpoC | 763792 | p.Glu141Asp | missense_variant | 0.14 |
rpoC | 763801 | c.432C>G | synonymous_variant | 0.14 |
rpoC | 763807 | c.438T>C | synonymous_variant | 0.14 |
rpoC | 763836 | p.Ala156Val | missense_variant | 0.14 |
rpoC | 763851 | p.Ala161Gly | missense_variant | 0.14 |
rpoC | 763855 | c.486C>T | synonymous_variant | 0.14 |
rpoC | 763858 | c.489A>G | synonymous_variant | 0.14 |
rpoC | 763872 | p.Gly168Ala | missense_variant | 0.16 |
rpoC | 763876 | p.Glu169Asp | missense_variant | 0.16 |
rpoC | 763879 | c.510A>G | synonymous_variant | 0.16 |
rpoC | 763888 | c.519G>C | synonymous_variant | 0.16 |
rpoC | 763891 | c.522G>C | synonymous_variant | 0.16 |
rpoC | 763894 | c.525A>G | synonymous_variant | 0.17 |
rpoC | 763936 | c.567C>G | synonymous_variant | 0.18 |
rpoC | 763939 | c.570G>A | synonymous_variant | 0.18 |
rpoC | 763951 | c.582G>A | synonymous_variant | 0.19 |
rpoC | 763963 | c.594C>G | synonymous_variant | 0.2 |
rpoC | 763967 | p.Gly200Ser | missense_variant | 0.18 |
rpoC | 763972 | c.603C>T | synonymous_variant | 0.18 |
rpoC | 763987 | c.618C>T | synonymous_variant | 0.19 |
rpoC | 763996 | c.627T>C | synonymous_variant | 0.21 |
rpoC | 764005 | c.636G>C | synonymous_variant | 0.23 |
rpoC | 764011 | c.642T>C | synonymous_variant | 0.23 |
rpoC | 764024 | c.655T>C | synonymous_variant | 0.21 |
rpoC | 764040 | p.Ser224Thr | missense_variant | 0.2 |
rpoC | 764044 | c.675T>G | synonymous_variant | 0.19 |
rpoC | 764059 | c.690G>T | synonymous_variant | 0.22 |
rpoC | 764083 | c.714A>G | synonymous_variant | 0.25 |
rpoC | 764098 | c.729A>G | synonymous_variant | 0.26 |
rpoC | 764101 | c.732C>G | synonymous_variant | 0.26 |
rpoC | 764140 | c.771C>T | synonymous_variant | 0.22 |
rpoC | 764159 | c.790C>T | synonymous_variant | 0.24 |
rpoC | 764188 | c.819A>G | synonymous_variant | 0.24 |
rpoC | 764195 | p.Ser276Ile | missense_variant | 0.24 |
rpoC | 764215 | c.846A>C | synonymous_variant | 0.19 |
rpoC | 764218 | c.849C>T | synonymous_variant | 0.19 |
rpoC | 764858 | c.1489T>C | synonymous_variant | 0.12 |
rpoC | 764887 | c.1518G>C | synonymous_variant | 0.13 |
rpoC | 764896 | c.1527C>T | synonymous_variant | 0.15 |
rpoC | 764902 | c.1533C>T | synonymous_variant | 0.16 |
rpoC | 764911 | c.1542A>G | synonymous_variant | 0.16 |
rpoC | 764923 | c.1554A>G | synonymous_variant | 0.15 |
rpoC | 764932 | c.1563C>G | synonymous_variant | 0.15 |
rpoC | 764948 | c.1579T>C | synonymous_variant | 0.15 |
rpoC | 765811 | c.2442T>G | synonymous_variant | 0.14 |
rpoC | 765814 | c.2445A>G | synonymous_variant | 0.15 |
rpoC | 765826 | c.2457T>C | synonymous_variant | 0.17 |
rpoC | 765835 | c.2466C>T | synonymous_variant | 0.2 |
rpoC | 765883 | c.2514C>G | synonymous_variant | 0.2 |
rpoC | 765886 | c.2517C>G | synonymous_variant | 0.2 |
rpoC | 765892 | c.2523T>C | synonymous_variant | 0.22 |
rpoC | 765934 | c.2565C>T | synonymous_variant | 0.16 |
rpoC | 766315 | c.2946C>G | synonymous_variant | 0.15 |
rpoC | 766321 | c.2952C>G | synonymous_variant | 0.17 |
rpoC | 766348 | c.2979A>G | synonymous_variant | 0.16 |
rpoC | 766369 | c.3000C>G | synonymous_variant | 0.15 |
rpoC | 766381 | c.3012C>T | synonymous_variant | 0.17 |
rpoC | 766384 | c.3015A>G | synonymous_variant | 0.19 |
rpoC | 766393 | c.3024C>G | synonymous_variant | 0.21 |
rpoC | 766402 | c.3033C>G | synonymous_variant | 0.23 |
rpoC | 766408 | c.3039C>T | synonymous_variant | 0.21 |
rpoC | 766426 | c.3057C>T | synonymous_variant | 0.2 |
rpoC | 766456 | c.3087C>G | synonymous_variant | 0.15 |
rpoC | 766573 | c.3204T>C | synonymous_variant | 0.17 |
rpoC | 766585 | c.3216T>C | synonymous_variant | 0.18 |
rpoC | 766594 | c.3225G>C | synonymous_variant | 0.18 |
rpoC | 766607 | p.Ile1080Leu | missense_variant | 0.2 |
rpoC | 766630 | c.3261G>T | synonymous_variant | 0.22 |
rpoC | 766660 | c.3291G>A | synonymous_variant | 0.24 |
rpoC | 766666 | c.3297C>G | synonymous_variant | 0.22 |
rpoC | 766672 | c.3303T>C | synonymous_variant | 0.21 |
rpoC | 766700 | c.3331C>T | synonymous_variant | 0.16 |
rpoC | 766726 | c.3357T>C | synonymous_variant | 0.16 |
rpoC | 766733 | c.3364C>T | synonymous_variant | 0.16 |
rpoC | 766738 | c.3369G>C | synonymous_variant | 0.15 |
rpoC | 766741 | c.3372G>C | synonymous_variant | 0.16 |
rpoC | 766750 | c.3381C>G | synonymous_variant | 0.16 |
rpoC | 766765 | c.3396A>C | synonymous_variant | 0.15 |
rpoC | 766774 | c.3405T>C | synonymous_variant | 0.15 |
rpoC | 766996 | c.3627C>G | synonymous_variant | 0.21 |
rpoC | 767002 | c.3633G>C | synonymous_variant | 0.22 |
rpoC | 767009 | c.3640_3642delTCGinsAGC | synonymous_variant | 0.18 |
rpoC | 767014 | c.3645G>C | synonymous_variant | 0.18 |
rpoC | 767033 | c.3664_3666delTCGinsAGT | synonymous_variant | 0.19 |
rpoC | 767059 | c.3690T>G | synonymous_variant | 0.15 |
rpoC | 767062 | c.3693C>A | synonymous_variant | 0.15 |
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 |
fbiC | 1303506 | c.576C>T | synonymous_variant | 0.14 |
fbiC | 1303512 | c.582T>C | synonymous_variant | 0.14 |
fbiC | 1303534 | p.Ser202Ala | missense_variant | 0.14 |
fbiC | 1303538 | p.Arg203Leu | missense_variant | 0.14 |
fbiC | 1303545 | c.615A>G | synonymous_variant | 0.16 |
fbiC | 1303575 | c.645G>C | synonymous_variant | 0.15 |
fbiC | 1303584 | c.654C>G | synonymous_variant | 0.2 |
fbiC | 1303596 | c.666G>C | synonymous_variant | 0.15 |
fbiC | 1303605 | c.675C>G | synonymous_variant | 0.14 |
fbiC | 1303614 | c.684C>T | synonymous_variant | 0.13 |
fbiC | 1303617 | c.687C>G | synonymous_variant | 0.14 |
fbiC | 1303629 | c.699C>T | synonymous_variant | 0.16 |
fbiC | 1303632 | c.702T>G | synonymous_variant | 0.16 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1475487 | n.1830C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475505 | n.1848G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475526 | n.1869C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475999 | n.2342G>T | non_coding_transcript_exon_variant | 0.15 |
inhA | 1674765 | c.564C>T | synonymous_variant | 0.12 |
inhA | 1674792 | c.591G>C | synonymous_variant | 0.14 |
inhA | 1674801 | c.600T>C | synonymous_variant | 0.14 |
inhA | 1674846 | p.Ile215Met | missense_variant | 0.13 |
rpsA | 1833703 | c.162C>T | synonymous_variant | 0.15 |
rpsA | 1833724 | c.183C>G | synonymous_variant | 0.14 |
rpsA | 1833727 | c.186G>C | synonymous_variant | 0.14 |
rpsA | 1833745 | c.204G>C | synonymous_variant | 0.17 |
rpsA | 1833760 | c.219C>T | synonymous_variant | 0.15 |
rpsA | 1833790 | c.249T>C | synonymous_variant | 0.15 |
rpsA | 1833793 | c.252C>T | synonymous_variant | 0.15 |
rpsA | 1833802 | c.261A>G | synonymous_variant | 0.14 |
rpsA | 1833832 | c.291G>A | synonymous_variant | 0.14 |
rpsA | 1833838 | c.297G>C | synonymous_variant | 0.14 |
rpsA | 1833841 | c.300C>G | synonymous_variant | 0.14 |
rpsA | 1833847 | c.306C>G | synonymous_variant | 0.13 |
rpsA | 1833856 | c.315A>G | synonymous_variant | 0.14 |
rpsA | 1833859 | c.318C>T | synonymous_variant | 0.14 |
rpsA | 1833874 | c.333T>C | synonymous_variant | 0.15 |
rpsA | 1833895 | c.354G>C | synonymous_variant | 0.19 |
rpsA | 1833928 | c.387G>C | synonymous_variant | 0.17 |
rpsA | 1833949 | c.408T>C | synonymous_variant | 0.19 |
rpsA | 1833970 | c.429G>A | synonymous_variant | 0.19 |
rpsA | 1833979 | c.438T>C | synonymous_variant | 0.2 |
rpsA | 1834015 | c.474G>C | synonymous_variant | 0.16 |
rpsA | 1834021 | c.480C>T | synonymous_variant | 0.16 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155389 | c.723C>G | synonymous_variant | 1.0 |
Rv1979c | 2221746 | c.1416_1418dupCCG | disruptive_inframe_insertion | 0.98 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2517941 | c.-174C>G | upstream_gene_variant | 0.14 |
kasA | 2517950 | c.-165C>G | upstream_gene_variant | 0.14 |
kasA | 2517962 | c.-153C>G | upstream_gene_variant | 0.14 |
thyX | 3067474 | p.Pro158Ala | missense_variant | 0.96 |
Rv3083 | 3448567 | p.His22Asp | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.99 |
Rv3236c | 3612571 | c.546C>T | synonymous_variant | 1.0 |
rpoA | 3877613 | p.Ile299Val | missense_variant | 0.15 |
rpoA | 3877617 | c.891G>C | synonymous_variant | 0.15 |
rpoA | 3877638 | c.870T>G | synonymous_variant | 0.17 |
rpoA | 3877656 | c.852T>C | synonymous_variant | 0.16 |
rpoA | 3877668 | c.840A>G | synonymous_variant | 0.14 |
rpoA | 3877677 | c.831G>C | synonymous_variant | 0.13 |
rpoA | 3877680 | c.828G>C | synonymous_variant | 0.13 |
rpoA | 3877686 | c.822A>G | synonymous_variant | 0.14 |
rpoA | 3877692 | c.816G>C | synonymous_variant | 0.15 |
rpoA | 3877704 | c.804G>T | synonymous_variant | 0.18 |
rpoA | 3877707 | c.801G>A | synonymous_variant | 0.17 |
rpoA | 3877737 | c.771G>C | synonymous_variant | 0.18 |
rpoA | 3877743 | c.765T>C | synonymous_variant | 0.2 |
rpoA | 3877758 | c.750G>C | synonymous_variant | 0.17 |
rpoA | 3877764 | c.744C>G | synonymous_variant | 0.18 |
rpoA | 3877770 | c.738A>G | synonymous_variant | 0.16 |
rpoA | 3877776 | c.732T>C | synonymous_variant | 0.18 |
rpoA | 3877782 | c.726T>C | synonymous_variant | 0.17 |
rpoA | 3877815 | c.693C>T | synonymous_variant | 0.15 |
rpoA | 3877839 | c.669G>C | synonymous_variant | 0.14 |
rpoA | 3877962 | c.546G>T | synonymous_variant | 0.17 |
rpoA | 3877968 | c.540C>G | synonymous_variant | 0.18 |
rpoA | 3877989 | c.519A>G | synonymous_variant | 0.19 |
rpoA | 3878001 | c.507A>G | synonymous_variant | 0.19 |
rpoA | 3878022 | c.486T>C | synonymous_variant | 0.21 |
rpoA | 3878025 | c.483C>T | synonymous_variant | 0.22 |
rpoA | 3878028 | c.480G>C | synonymous_variant | 0.21 |
rpoA | 3878031 | c.477T>C | synonymous_variant | 0.22 |
rpoA | 3878043 | c.465G>C | synonymous_variant | 0.24 |
rpoA | 3878046 | c.462T>G | synonymous_variant | 0.24 |
rpoA | 3878055 | c.453A>G | synonymous_variant | 0.27 |
rpoA | 3878061 | c.447G>C | synonymous_variant | 0.26 |
rpoA | 3878067 | c.441C>G | synonymous_variant | 0.26 |
rpoA | 3878070 | c.438T>C | synonymous_variant | 0.26 |
rpoA | 3878094 | c.414C>G | synonymous_variant | 0.27 |
rpoA | 3878103 | c.405A>G | synonymous_variant | 0.26 |
rpoA | 3878106 | c.402G>C | synonymous_variant | 0.25 |
rpoA | 3878118 | c.390T>C | synonymous_variant | 0.25 |
rpoA | 3878130 | c.378C>G | synonymous_variant | 0.24 |
rpoA | 3878145 | c.363C>G | synonymous_variant | 0.22 |
rpoA | 3878163 | c.345C>T | synonymous_variant | 0.18 |
rpoA | 3878166 | c.342C>G | synonymous_variant | 0.19 |
rpoA | 3878169 | c.339G>C | synonymous_variant | 0.2 |
rpoA | 3878184 | c.324C>T | synonymous_variant | 0.19 |
rpoA | 3878187 | c.321C>G | synonymous_variant | 0.18 |
rpoA | 3878193 | c.315T>C | synonymous_variant | 0.18 |
rpoA | 3878205 | c.303T>C | synonymous_variant | 0.15 |
rpoA | 3878217 | c.291A>G | synonymous_variant | 0.16 |
rpoA | 3878256 | c.252G>C | synonymous_variant | 0.13 |
rpoA | 3878264 | p.Ser82Gly | missense_variant | 0.12 |
rpoA | 3878271 | c.237T>C | synonymous_variant | 0.14 |
rpoA | 3878283 | p.Glu75Asp | missense_variant | 0.15 |
rpoA | 3878295 | c.213A>G | synonymous_variant | 0.14 |
rpoA | 3878298 | c.210A>G | synonymous_variant | 0.15 |
rpoA | 3878304 | c.204G>C | synonymous_variant | 0.15 |
rpoA | 3878313 | c.195G>C | synonymous_variant | 0.16 |
rpoA | 3878322 | c.186A>G | synonymous_variant | 0.16 |
rpoA | 3878331 | c.177A>C | synonymous_variant | 0.17 |
rpoA | 3878334 | c.174T>C | synonymous_variant | 0.18 |
rpoA | 3878337 | c.171T>C | synonymous_variant | 0.18 |
rpoA | 3878346 | c.162T>C | synonymous_variant | 0.21 |
rpoA | 3878364 | c.144A>C | synonymous_variant | 0.18 |
rpoA | 3878370 | c.138T>C | synonymous_variant | 0.22 |
rpoA | 3878376 | c.132G>C | synonymous_variant | 0.22 |
rpoA | 3878384 | c.124C>T | synonymous_variant | 0.21 |
rpoA | 3878385 | c.123C>G | synonymous_variant | 0.21 |
rpoA | 3878391 | c.117T>G | synonymous_variant | 0.22 |
rpoA | 3878415 | c.93C>T | synonymous_variant | 0.19 |
rpoA | 3878418 | c.90C>T | synonymous_variant | 0.19 |
rpoA | 3878436 | c.72A>G | synonymous_variant | 0.16 |
rpoA | 3878442 | c.66G>C | synonymous_variant | 0.16 |
rpoA | 3878454 | c.54A>G | synonymous_variant | 0.15 |
rpoA | 3878458 | p.Asn17Ser | missense_variant | 0.15 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.19 |
clpC1 | 4038508 | c.2197C>T | synonymous_variant | 0.14 |
clpC1 | 4038518 | c.2187G>T | synonymous_variant | 0.14 |
clpC1 | 4038530 | p.Glu725Asp | missense_variant | 0.13 |
clpC1 | 4038537 | p.Thr723Ser | missense_variant | 0.14 |
clpC1 | 4038539 | c.2166G>C | synonymous_variant | 0.15 |
clpC1 | 4038596 | c.2109A>G | synonymous_variant | 0.17 |
clpC1 | 4038620 | c.2085G>A | synonymous_variant | 0.16 |
clpC1 | 4038623 | c.2082A>G | synonymous_variant | 0.17 |
clpC1 | 4038653 | c.2052C>T | synonymous_variant | 0.17 |
clpC1 | 4038658 | p.Lys683Gln | missense_variant | 0.14 |
clpC1 | 4038661 | p.Ser682Thr | missense_variant | 0.13 |
clpC1 | 4038662 | c.2043T>C | synonymous_variant | 0.13 |
clpC1 | 4038668 | c.2037G>C | synonymous_variant | 0.13 |
clpC1 | 4038671 | c.2034T>C | synonymous_variant | 0.12 |
clpC1 | 4038677 | c.2028G>C | synonymous_variant | 0.13 |
clpC1 | 4038683 | c.2022T>C | synonymous_variant | 0.13 |
clpC1 | 4038692 | c.2013C>G | synonymous_variant | 0.13 |
clpC1 | 4038695 | c.2010C>G | synonymous_variant | 0.13 |
clpC1 | 4038704 | c.2001T>C | synonymous_variant | 0.13 |
clpC1 | 4038713 | c.1992T>C | synonymous_variant | 0.14 |
clpC1 | 4038740 | c.1965G>C | synonymous_variant | 0.13 |
clpC1 | 4038809 | c.1896G>A | synonymous_variant | 0.14 |
clpC1 | 4038812 | c.1893T>C | synonymous_variant | 0.14 |
clpC1 | 4038875 | c.1830C>G | synonymous_variant | 0.14 |
clpC1 | 4038878 | c.1827A>G | synonymous_variant | 0.14 |
clpC1 | 4038908 | c.1797C>G | synonymous_variant | 0.15 |
clpC1 | 4038914 | c.1791G>C | synonymous_variant | 0.15 |
clpC1 | 4038923 | c.1782A>G | synonymous_variant | 0.17 |
clpC1 | 4038941 | c.1764G>A | synonymous_variant | 0.17 |
clpC1 | 4038953 | c.1752A>G | synonymous_variant | 0.13 |
clpC1 | 4038956 | c.1749T>C | synonymous_variant | 0.13 |
clpC1 | 4040291 | c.414G>C | synonymous_variant | 0.12 |
embA | 4242550 | c.-683C>G | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245745 | p.Pro838Leu | missense_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.36 |
embB | 4247527 | c.1014G>C | synonymous_variant | 0.13 |
embB | 4247554 | c.1041T>C | synonymous_variant | 0.14 |
embB | 4247566 | c.1053C>G | synonymous_variant | 0.13 |
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 |