Run ID: ERR245809
Sample name:
Date: 31-03-2023 18:22:40
Number of reads: 8386399
Percentage reads mapped: 76.35
Strain: lineage4.3.4.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.1 | Euro-American (LAM) | LAM1;LAM2 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5347 | c.108G>C | synonymous_variant | 0.18 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
ccsA | 620407 | p.Pro173Ala | missense_variant | 0.3 |
ccsA | 620748 | c.858T>G | synonymous_variant | 0.25 |
rpoB | 759831 | p.Thr9Pro | missense_variant | 0.21 |
rpoB | 762249 | p.Leu815Val | missense_variant | 0.21 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.33 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777399 | p.Thr361Arg | missense_variant | 0.17 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.19 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472151 | n.306C>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472344 | n.499C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472379 | n.534T>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472382 | n.537G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472400 | n.555C>T | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472579 | n.734G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472705 | n.860G>A | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472733 | n.888G>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472742 | n.897C>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472779 | n.934G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473053 | n.1208T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473070 | n.1225G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473343 | n.1498G>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474380 | n.723G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474902 | n.1245T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475129 | n.1472G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475154 | n.1497C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475167 | n.1510T>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476603 | n.2946G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476607 | n.2950C>T | non_coding_transcript_exon_variant | 0.13 |
fabG1 | 1673449 | p.Thr4Pro | missense_variant | 0.37 |
inhA | 1674892 | p.Asn231Asp | missense_variant | 0.21 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102891 | p.Phe51Ser | missense_variant | 0.22 |
PPE35 | 2168428 | c.2184dupG | frameshift_variant | 1.0 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.44 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.21 |
eis | 2715586 | c.-254G>C | upstream_gene_variant | 0.64 |
ahpC | 2725954 | c.-239C>T | upstream_gene_variant | 0.28 |
folC | 2746186 | c.1413G>C | synonymous_variant | 0.27 |
pepQ | 2859381 | c.1038C>G | synonymous_variant | 0.16 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.3 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449058 | p.Ser185Arg | missense_variant | 0.27 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3611992 | c.1125T>G | synonymous_variant | 0.62 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 0.99 |
fbiB | 3640614 | c.-921C>T | upstream_gene_variant | 1.0 |
fbiB | 3642734 | c.1200G>C | synonymous_variant | 0.29 |
rpoA | 3877766 | p.Ala248Pro | missense_variant | 0.3 |
ddn | 3987013 | p.Gly57Ala | missense_variant | 0.23 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.17 |
clpC1 | 4039363 | p.Ala448Pro | missense_variant | 0.32 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.2 |
embC | 4241429 | p.Phe523Val | missense_variant | 0.42 |
embC | 4241456 | p.Ala532Pro | missense_variant | 0.42 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.14 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.27 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.39 |
embC | 4242827 | p.Leu989Val | missense_variant | 0.21 |
embA | 4245329 | c.2097A>G | synonymous_variant | 1.0 |
embB | 4249504 | p.Gln997His | missense_variant | 0.27 |
aftB | 4268812 | p.Ser9Ala | missense_variant | 0.31 |
aftB | 4269411 | c.-575T>C | upstream_gene_variant | 0.99 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.17 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.34 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.99 |