Run ID: SRR19303788
Sample name:
Date: 03-04-2023 21:06:38
Number of reads: 1197183
Percentage reads mapped: 40.89
Strain: lineage4.8
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
fgd1 | 490756 | c.-27T>G | upstream_gene_variant | 0.23 |
fgd1 | 491444 | p.Ser221Phe | missense_variant | 0.1 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.15 |
rpoC | 764348 | p.Met327Leu | missense_variant | 0.1 |
rpoC | 764355 | p.Gln329Pro | missense_variant | 0.12 |
rpoC | 764405 | c.1036_1038delAGGinsCGC | synonymous_variant | 0.13 |
rpoC | 764410 | c.1041G>C | synonymous_variant | 0.14 |
rpoC | 764425 | c.1056C>T | synonymous_variant | 0.13 |
rpoC | 764428 | c.1059G>T | synonymous_variant | 0.15 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.12 |
rpoC | 764435 | c.1066A>C | synonymous_variant | 0.13 |
rpoC | 764443 | p.Ile358Met | missense_variant | 0.13 |
rpoC | 764446 | p.Asp359Glu | missense_variant | 0.12 |
rpoC | 764450 | p.Gly361Arg | missense_variant | 0.13 |
rpoC | 764461 | p.Glu364Asp | missense_variant | 0.16 |
rpoC | 764468 | p.Val367Ile | missense_variant | 0.14 |
rpoC | 764471 | p.Asn368Arg | missense_variant | 0.14 |
rpoC | 764479 | c.1110G>A | synonymous_variant | 0.15 |
rpoC | 764485 | c.1116G>C | synonymous_variant | 0.16 |
rpoC | 764498 | p.Ser377Ala | missense_variant | 0.27 |
rpoC | 764521 | c.1152T>C | synonymous_variant | 0.33 |
rpoC | 764536 | c.1167G>C | synonymous_variant | 0.32 |
rpoC | 764537 | p.Pro390Val | missense_variant | 0.37 |
rpoC | 764540 | p.Val391Ile | missense_variant | 0.36 |
rpoC | 764548 | c.1179G>C | synonymous_variant | 0.34 |
rpoC | 764549 | p.Pro394Ala | missense_variant | 0.34 |
rpoC | 764552 | p.Gly395Asn | missense_variant | 0.34 |
rpoC | 764557 | p.Asn396Lys | missense_variant | 0.34 |
rpoC | 764566 | c.1197C>G | synonymous_variant | 0.38 |
rpoC | 764575 | c.1206T>C | synonymous_variant | 0.35 |
rpoC | 764576 | p.Ser403Ala | missense_variant | 0.35 |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.35 |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.37 |
rpoC | 764605 | c.1236G>C | synonymous_variant | 0.44 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.44 |
rpoC | 764629 | c.1260G>A | synonymous_variant | 0.42 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.41 |
rpoC | 764641 | c.1272C>T | synonymous_variant | 0.31 |
rpoC | 764644 | c.1275G>C | synonymous_variant | 0.24 |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.24 |
rpoC | 764656 | c.1287C>T | synonymous_variant | 0.23 |
rpoC | 764671 | c.1302G>C | synonymous_variant | 0.17 |
rpoC | 764672 | p.Gln435Glu | missense_variant | 0.17 |
rpoC | 764677 | c.1308C>G | synonymous_variant | 0.17 |
rpoC | 764686 | c.1317C>T | synonymous_variant | 0.15 |
rpoC | 764695 | c.1326T>C | synonymous_variant | 0.14 |
rpoC | 764701 | c.1332C>G | synonymous_variant | 0.15 |
rpoC | 764705 | p.Leu446Lys | missense_variant | 0.14 |
rpoC | 764716 | c.1347G>C | synonymous_variant | 0.15 |
rpoC | 764719 | c.1350G>A | synonymous_variant | 0.15 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_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 | 1472181 | n.336G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474684 | n.1027T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474876 | n.1219T>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474883 | n.1226T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476336 | n.2679C>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476356 | n.2699C>G | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476357 | n.2700T>A | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.58 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476384 | n.2727G>C | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476428 | n.2771C>A | non_coding_transcript_exon_variant | 0.54 |
rrl | 1476443 | n.2786G>C | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476455 | n.2798C>G | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.19 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.25 |
ald | 3087818 | p.Cys333Trp | missense_variant | 0.17 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.86 |
fbiD | 3339746 | p.Ala210Gly | missense_variant | 0.5 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
embC | 4240411 | c.549G>C | synonymous_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246527 | p.Ala5Gly | missense_variant | 0.23 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.5 |
whiB6 | 4338205 | p.Val106Gly | missense_variant | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |