Run ID: SRR1062868
Sample name:
Date: 02-04-2023 18:37:35
Number of reads: 161594
Percentage reads mapped: 3.78
Strain: lineage4.9
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | None | 0.88 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7564 | p.Gly88Ala | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
inhA | 1674048 | c.-154G>A | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
gid | 4407899 | p.Arg102* | stop_gained | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8815 | p.Val505Gly | missense_variant | 0.4 |
rpoC | 762894 | c.-476C>T | upstream_gene_variant | 0.5 |
rpoC | 762899 | c.-471G>C | upstream_gene_variant | 0.6 |
rpoB | 762911 | p.Ile1035Met | missense_variant | 0.5 |
rpoC | 762917 | c.-453C>G | upstream_gene_variant | 0.5 |
rpoC | 762920 | c.-450C>T | upstream_gene_variant | 0.5 |
rpoC | 762923 | c.-447C>G | upstream_gene_variant | 0.5 |
rpoC | 762929 | c.-441G>T | upstream_gene_variant | 0.5 |
rpoB | 762939 | p.Met1045Leu | missense_variant | 0.43 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.43 |
rpoC | 762947 | c.-423C>G | upstream_gene_variant | 0.43 |
rpoC | 762971 | c.-399G>C | upstream_gene_variant | 0.38 |
rpoC | 764605 | c.1236G>C | synonymous_variant | 1.0 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 1.0 |
rpoC | 764617 | c.1248C>T | synonymous_variant | 1.0 |
rpoC | 764623 | c.1254C>G | synonymous_variant | 1.0 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 1.0 |
rpoC | 764647 | c.1278C>T | synonymous_variant | 1.0 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 1.0 |
rpoC | 764658 | c.1289_1290insTAC | disruptive_inframe_insertion | 1.0 |
rpoC | 764662 | c.1295_1297delTCG | disruptive_inframe_deletion | 1.0 |
rpoC | 764671 | c.1302G>A | synonymous_variant | 1.0 |
rpoC | 764672 | p.Gln435Thr | missense_variant | 1.0 |
rpoC | 764902 | c.1533C>G | synonymous_variant | 0.4 |
rpoC | 764911 | c.1542A>G | synonymous_variant | 0.6 |
rpoC | 764912 | p.Met515Val | missense_variant | 0.6 |
rpoC | 764918 | p.Val517Ile | missense_variant | 0.6 |
rpoC | 764935 | c.1566T>C | synonymous_variant | 0.6 |
rpoC | 764948 | c.1579T>C | synonymous_variant | 1.0 |
rpoC | 764953 | c.1584G>C | synonymous_variant | 1.0 |
rpoC | 764956 | c.1587T>C | synonymous_variant | 1.0 |
rpoC | 764958 | p.Glu530Ala | missense_variant | 1.0 |
rpoC | 764968 | c.1599T>C | synonymous_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1305152 | p.Pro741Leu | missense_variant | 0.4 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471876 | n.31G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1471877 | n.32A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1471878 | n.33C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1471892 | n.47G>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1471898 | n.53A>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.93 |
rrs | 1472210 | n.365A>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.99 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.99 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.99 |
rrs | 1472251 | n.406G>C | non_coding_transcript_exon_variant | 0.97 |
rrs | 1472252 | n.407G>A | non_coding_transcript_exon_variant | 0.94 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.97 |
rrs | 1472278 | n.433C>T | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472279 | n.434T>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472344 | n.499C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472389 | n.544G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472390 | n.545T>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472391 | n.546C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472412 | n.567A>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472648 | n.803G>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.97 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.95 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.97 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.97 |
rrs | 1472785 | n.940G>T | non_coding_transcript_exon_variant | 0.96 |
rrs | 1472786 | n.941C>G | non_coding_transcript_exon_variant | 0.96 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.92 |
rrs | 1472814 | n.969G>A | non_coding_transcript_exon_variant | 0.95 |
rrs | 1472824 | n.979T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472887 | n.1042G>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473139 | n.1294T>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1473147 | n.1302G>C | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.85 |
rrs | 1473164 | n.1319C>G | non_coding_transcript_exon_variant | 0.85 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.92 |
rrs | 1473191 | n.1346C>T | non_coding_transcript_exon_variant | 0.95 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.95 |
rrs | 1473198 | n.1354delC | non_coding_transcript_exon_variant | 0.95 |
rrs | 1473202 | n.1357C>T | non_coding_transcript_exon_variant | 0.95 |
rrs | 1473204 | n.1359C>T | non_coding_transcript_exon_variant | 0.97 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.97 |
rrs | 1473206 | n.1361G>A | non_coding_transcript_exon_variant | 0.97 |
rrs | 1473226 | n.1381C>T | non_coding_transcript_exon_variant | 0.93 |
rrs | 1473248 | n.1403G>A | non_coding_transcript_exon_variant | 0.62 |
rrl | 1475783 | n.2126T>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475787 | n.2130C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.45 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476056 | n.2399G>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.78 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.97 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.97 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.97 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.97 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.97 |
rrl | 1476411 | n.2754G>T | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.96 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.94 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.94 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476463 | n.2806C>A | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.95 |
rrl | 1476483 | n.2826G>A | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476501 | n.2844C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.64 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv2752c | 3065512 | p.Arg227Leu | missense_variant | 0.67 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4039983 | p.Thr241Arg | missense_variant | 0.33 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4248077 | p.Asn522His | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |