TB-Profiler result

Run: SRR6046398
Summary

Run ID: SRR6046398

Sample name:

Date: 04-04-2023 12:16:05

Number of reads: 3126939

Percentage reads mapped: 94.63

Strain: lineage4.1.1.3.1

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 1.0
lineage4.1.1.3.1 Euro-American (X-type) X1;X3 RD193 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.48 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.13 kanamycin, capreomycin, aminoglycosides, amikacin
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
fbiC 1303601 p.Glu224Gly missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.13
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.15
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.14
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.17
rrs 1472498 n.653C>A non_coding_transcript_exon_variant 0.13
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.33
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.38
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.43
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.52
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.5
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.48
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.48
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.42
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.43
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.42
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.44
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.44
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.19
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.48
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.46
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.46
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.5
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.47
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.5
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.52
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.38
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.36
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.12
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.1
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.12
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.12
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.13
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.11
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.15
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.13
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.13
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.13
rrs 1473270 n.1425G>A non_coding_transcript_exon_variant 0.12
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.8
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.8
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.8
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.8
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.67
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.67
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.8
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.5
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.4
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.33
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.33
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.33
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.22
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.22
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.33
rrl 1474759 n.1102A>T non_coding_transcript_exon_variant 0.25
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.18
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.25
rrl 1475758 n.2101A>G non_coding_transcript_exon_variant 0.25
rrl 1475759 n.2102C>A non_coding_transcript_exon_variant 0.25
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.25
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.25
rrl 1475764 n.2107A>T non_coding_transcript_exon_variant 0.25
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.25
rrl 1475769 n.2112_2113insC non_coding_transcript_exon_variant 0.22
rrl 1476035 n.2378G>A non_coding_transcript_exon_variant 0.22
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.4
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.4
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.4
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.65
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.65
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.65
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.65
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.58
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.58
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.58
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.58
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.52
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.55
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.5
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.5
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.5
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.5
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.52
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.7
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.73
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.76
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.79
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.73
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.73
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.68
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.68
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.61
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.66
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.66
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.39
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4269540 c.-704C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0