Run ID: SRR9971026
Sample name:
Date: 04-04-2023 23:07:18
Number of reads: 4464801
Percentage reads mapped: 20.92
Strain: lineage4.4.1.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | 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 |
lineage4.4.1.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5239 | c.-1C>G | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 575719 | c.372C>T | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.32 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.18 |
rpoC | 764602 | c.1233C>T | synonymous_variant | 0.22 |
rpoC | 764605 | c.1236G>C | synonymous_variant | 0.23 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.27 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.25 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.22 |
rpoC | 764672 | p.Gln435Tyr | missense_variant | 0.18 |
rpoC | 764677 | c.1308C>G | synonymous_variant | 0.17 |
rpoC | 764678 | p.Lys437Arg | missense_variant | 0.18 |
rpoC | 764695 | c.1326T>C | synonymous_variant | 0.19 |
rpoC | 764701 | c.1332C>G | synonymous_variant | 0.19 |
rpoC | 764705 | p.Leu446Lys | missense_variant | 0.17 |
rpoC | 764716 | c.1347G>C | synonymous_variant | 0.19 |
rpoC | 764858 | p.Leu497Met | missense_variant | 0.28 |
rpoC | 764869 | c.1500C>T | synonymous_variant | 0.29 |
rpoC | 764872 | c.1503A>G | synonymous_variant | 0.28 |
rpoC | 764875 | c.1506C>G | synonymous_variant | 0.27 |
rpoC | 764887 | c.1518G>T | synonymous_variant | 0.28 |
rpoC | 764888 | c.1519T>C | synonymous_variant | 0.29 |
rpoC | 764893 | c.1524T>C | synonymous_variant | 0.3 |
rpoC | 764902 | c.1533C>G | synonymous_variant | 0.3 |
rpoC | 764911 | c.1542A>G | synonymous_variant | 0.3 |
rpoC | 764912 | p.Met515Val | missense_variant | 0.29 |
rpoC | 764918 | p.Val517Ile | missense_variant | 0.29 |
rpoC | 764935 | c.1566T>C | synonymous_variant | 0.33 |
rpoC | 764948 | c.1579T>C | synonymous_variant | 0.33 |
rpoC | 764953 | c.1584G>C | synonymous_variant | 0.34 |
rpoC | 764956 | c.1587T>C | synonymous_variant | 0.32 |
rpoC | 764957 | p.Glu530Thr | missense_variant | 0.32 |
rpoC | 764968 | c.1599T>C | synonymous_variant | 0.31 |
rpoC | 764998 | c.1629G>C | synonymous_variant | 0.16 |
mmpL5 | 775639 | p.Ile948Val | 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 | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472177 | n.332C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472243 | n.398G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472256 | n.411T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472707 | n.862A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472714 | n.869A>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472716 | n.871C>G | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472887 | n.1042G>C | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472982 | n.1137G>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472988 | n.1143T>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.86 |
rrs | 1472996 | n.1151T>C | non_coding_transcript_exon_variant | 0.86 |
rrs | 1473002 | n.1157G>T | non_coding_transcript_exon_variant | 0.87 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.86 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.87 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.87 |
rrs | 1473017 | n.1172A>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1473044 | n.1199C>G | non_coding_transcript_exon_variant | 0.84 |
rrs | 1473051 | n.1206T>C | non_coding_transcript_exon_variant | 0.8 |
rrs | 1473053 | n.1208T>G | non_coding_transcript_exon_variant | 0.8 |
rrs | 1473062 | n.1217T>A | non_coding_transcript_exon_variant | 0.75 |
rrs | 1473068 | n.1223A>G | non_coding_transcript_exon_variant | 0.65 |
rrs | 1473070 | n.1225G>A | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473080 | n.1235C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473139 | n.1294T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.31 |
rrs | 1473201 | n.1356A>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473202 | n.1357C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.72 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.78 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.83 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.82 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.81 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.77 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.76 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.7 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.25 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.99 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.12 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.22 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |