TB-Profiler result

Run: SRR10851730
Summary

Run ID: SRR10851730

Sample name:

Date: 02-04-2023 19:33:33

Number of reads: 1255244

Percentage reads mapped: 65.75

Strain: lineage4.3.3

Drug-resistance: Other

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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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 0.74 streptomycin
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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.28
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 767198 p.Glu1277* stop_gained 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776725 p.Tyr586His 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 1472150 n.305T>A non_coding_transcript_exon_variant 0.16
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.18
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.23
rrs 1472498 n.653C>A non_coding_transcript_exon_variant 0.14
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.67
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.66
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.67
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.7
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.69
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.7
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.71
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.75
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.76
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.73
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.75
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.75
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.75
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.79
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.71
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.69
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.69
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.66
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.66
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.66
rrs 1472687 n.842A>C non_coding_transcript_exon_variant 0.64
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.66
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.67
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.7
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.74
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.74
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.75
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.75
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.57
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.58
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.53
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.18
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.13
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.22
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.31
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.3
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.3
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.3
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.21
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.19
rrl 1476126 n.2469C>T non_coding_transcript_exon_variant 0.22
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.32
rrl 1476135 n.2478T>C non_coding_transcript_exon_variant 0.43
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.51
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.55
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.56
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.52
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.52
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.52
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.52
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.52
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.52
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.52
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.48
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.53
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.55
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.55
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.58
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.66
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.66
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.68
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.68
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.65
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.55
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.56
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.56
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.56
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.57
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.57
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.61
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.62
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.6
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.61
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.8
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.82
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.85
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.87
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.87
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.86
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.86
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.87
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.87
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.87
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.87
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.81
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.64
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.47
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.37
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.21
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.18
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 0.96
PPE35 2169067 p.Ala516Thr missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407839 c.363dupG frameshift_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0