Run ID: ERR9993035
Sample name:
Date: 02-04-2023 14:00:49
Number of reads: 2438690
Percentage reads mapped: 62.51
Strain: lineage4.4.1.1
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 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761277 | p.Ile491Phe | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289091 | p.His51Asp | missense_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9138 | p.Gln613Glu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.29 |
rpoC | 766467 | p.Glu1033Ala | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777416 | c.1065G>T | synonymous_variant | 1.0 |
mmpR5 | 779426 | p.Met146Thr | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472089 | n.244C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472094 | n.249T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472210 | n.365A>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472222 | n.377G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472229 | n.384C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472669 | n.824_825insTGG | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472677 | n.832C>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472678 | n.833T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472708 | n.863T>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472733 | n.888G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472742 | n.897C>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472953 | n.1108G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472969 | n.1125_1126delCG | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472974 | n.1129A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472975 | n.1130T>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472977 | n.1132G>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473001 | n.1156G>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473002 | n.1157G>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473008 | n.1163C>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473009 | n.1164T>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473020 | n.1175T>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473416 | n.-242G>C | upstream_gene_variant | 1.0 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.1 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
PPE35 | 2168479 | p.Thr712Pro | missense_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518496 | c.382C>T | synonymous_variant | 1.0 |
Rv2752c | 3065023 | p.Pro390Leu | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448522 | p.Val7Phe | missense_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568779 | c.-100T>C | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |