Run ID: ERR4831841
Sample name:
Date: 01-04-2023 21:09:33
Number of reads: 1690482
Percentage reads mapped: 92.8
Strain: lineage4.4.2;lineage2.2.1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.91 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.08 |
lineage4.4 | Euro-American | S;T | None | 0.91 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.05 |
lineage4.4.2 | Euro-American | T1;T2 | None | 0.9 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
gid | 4408100 | c.102delG | frameshift_variant | 0.98 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7168 | c.-134C>G | upstream_gene_variant | 0.11 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491424 | c.642C>T | synonymous_variant | 0.12 |
fgd1 | 491454 | c.672C>A | synonymous_variant | 0.13 |
rpoB | 760181 | c.375T>C | synonymous_variant | 0.12 |
rpoB | 760184 | c.378A>G | synonymous_variant | 0.11 |
rpoB | 760193 | c.387C>G | synonymous_variant | 0.12 |
rpoB | 760196 | c.390C>G | synonymous_variant | 0.12 |
rpoB | 760235 | c.429T>C | synonymous_variant | 0.12 |
rpoB | 760244 | c.438G>C | synonymous_variant | 0.1 |
rpoB | 761147 | c.1341C>T | synonymous_variant | 0.13 |
rpoB | 761150 | c.1344A>T | synonymous_variant | 0.12 |
rpoB | 761165 | c.1359G>C | synonymous_variant | 0.12 |
rpoB | 761171 | c.1365C>T | synonymous_variant | 0.12 |
rpoB | 761180 | c.1374A>C | synonymous_variant | 0.11 |
rpoB | 761186 | p.Glu460Asp | missense_variant | 0.11 |
rpoB | 761189 | c.1383T>C | synonymous_variant | 0.11 |
rpoB | 761195 | c.1389G>C | synonymous_variant | 0.11 |
rpoB | 761198 | c.1392G>C | synonymous_variant | 0.11 |
rpoB | 762101 | c.2295C>G | synonymous_variant | 0.11 |
rpoB | 762114 | p.Ile770Val | missense_variant | 0.1 |
rpoB | 762194 | c.2388G>C | synonymous_variant | 0.1 |
rpoC | 762917 | c.-453C>G | upstream_gene_variant | 0.12 |
rpoC | 762920 | c.-450C>T | upstream_gene_variant | 0.2 |
rpoC | 762923 | c.-447C>G | upstream_gene_variant | 0.19 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.22 |
rpoC | 762959 | c.-411G>C | upstream_gene_variant | 0.28 |
rpoC | 762962 | c.-408C>T | upstream_gene_variant | 0.24 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.35 |
rpoC | 763915 | c.546C>T | synonymous_variant | 0.87 |
rpoC | 763933 | c.564C>T | synonymous_variant | 0.11 |
rpoC | 763940 | p.Ala191Ser | missense_variant | 0.14 |
rpoC | 764824 | c.1455T>C | synonymous_variant | 0.12 |
rpoC | 764827 | c.1458G>C | synonymous_variant | 0.12 |
rpoC | 764858 | c.1489T>C | synonymous_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 779054 | p.Gln22Arg | missense_variant | 0.89 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303047 | c.117G>A | synonymous_variant | 0.93 |
embR | 1416989 | c.358delA | frameshift_variant | 0.97 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472848 | n.1003T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472861 | n.1016G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472969 | n.1124A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472970 | n.1125C>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472977 | n.1132G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472978 | n.1133T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473082 | n.1237G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1473953 | n.296T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474356 | n.699T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1474362 | n.705A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474387 | n.730C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474496 | n.839C>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474497 | n.840G>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474506 | n.849C>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474507 | n.850G>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474803 | n.1146G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474913 | n.1256T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475120 | n.1463G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475129 | n.1472G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475452 | n.1795C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475475 | n.1818C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475479 | n.1822C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475480 | n.1823A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475488 | n.1831G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475573 | n.1916G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475602 | n.1945G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475989 | n.2332T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475993 | n.2336C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475997 | n.2340A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476160 | n.2503T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476299 | n.2642C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476597 | n.2940G>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476603 | n.2946G>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476608 | n.2951C>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.14 |
rpsA | 1833619 | c.78A>C | synonymous_variant | 0.12 |
rpsA | 1833625 | c.84A>G | synonymous_variant | 0.12 |
rpsA | 1833664 | c.123C>G | synonymous_variant | 0.11 |
rpsA | 1833676 | c.135A>G | synonymous_variant | 0.12 |
rpsA | 1833679 | c.138G>T | synonymous_variant | 0.11 |
rpsA | 1833685 | c.144G>C | synonymous_variant | 0.11 |
rpsA | 1833691 | c.150G>A | synonymous_variant | 0.12 |
rpsA | 1833694 | c.153G>T | synonymous_variant | 0.12 |
rpsA | 1833697 | c.156C>T | synonymous_variant | 0.12 |
rpsA | 1833700 | c.159C>T | synonymous_variant | 0.12 |
rpsA | 1833709 | c.168C>T | synonymous_variant | 0.11 |
rpsA | 1833760 | c.219C>T | synonymous_variant | 0.17 |
rpsA | 1833787 | c.246C>G | synonymous_variant | 0.11 |
rpsA | 1833790 | c.249T>C | synonymous_variant | 0.11 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.11 |
rpsA | 1834261 | c.720A>G | synonymous_variant | 0.11 |
rpsA | 1834264 | c.723G>C | synonymous_variant | 0.11 |
rpsA | 1834357 | c.816T>C | synonymous_variant | 0.13 |
rpsA | 1834366 | c.825A>G | synonymous_variant | 0.13 |
rpsA | 1834375 | c.834G>C | synonymous_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.12 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.2 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.25 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.25 |
Rv1979c | 2221889 | p.Val426Ile | missense_variant | 0.18 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2517917 | c.-198G>C | upstream_gene_variant | 0.13 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 0.83 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448348 | c.-156G>A | upstream_gene_variant | 0.89 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.25 |
clpC1 | 4038612 | p.Asn698Ser | missense_variant | 0.98 |
clpC1 | 4039022 | c.1683A>G | synonymous_variant | 0.15 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246508 | c.-6G>A | upstream_gene_variant | 0.83 |
embB | 4247249 | p.Gly246Arg | missense_variant | 0.94 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.12 |
aftB | 4268928 | c.-92C>T | upstream_gene_variant | 0.81 |
aftB | 4269375 | c.-539G>A | upstream_gene_variant | 0.95 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.14 |