TB-Profiler result

Run: ERR4821136
Summary

Run ID: ERR4821136

Sample name:

Date: 01-04-2023 17:04:51

Number of reads: 4310984

Percentage reads mapped: 97.47

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 None 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 0.57 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 6352 c.-950C>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
gyrA 9338 p.Gln679His missense_variant 1.0
mmpL5 775631 p.Gln950His missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779282 p.Asn98Ser 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 0.1
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.22
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.2
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.18
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.35
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.47
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.57
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.55
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.17
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.66
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.13
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.62
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.43
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.31
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.72
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.62
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.62
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.14
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.31
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.22
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.48
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.48
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.55
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.55
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.56
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.43
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.43
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.14
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.14
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.14
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.19
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.16
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.18
rrs 1472988 n.1143T>C 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 0.25
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.44
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.29
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.24
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.17
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.14
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.6
rrl 1474275 n.618T>G non_coding_transcript_exon_variant 0.33
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.25
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.4
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.67
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.67
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.67
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.5
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.5
rrl 1474901 n.1244A>G non_coding_transcript_exon_variant 0.5
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.75
rrl 1474921 n.1264C>T non_coding_transcript_exon_variant 0.67
rrl 1475713 n.2056C>T non_coding_transcript_exon_variant 0.29
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.22
rrl 1475756 n.2101_2108delACCCGCAA non_coding_transcript_exon_variant 0.22
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.15
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.23
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.31
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.27
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.27
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.27
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.25
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.21
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.21
rrl 1475990 n.2333G>A non_coding_transcript_exon_variant 0.25
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.23
rrl 1476028 n.2372_2375delAACC non_coding_transcript_exon_variant 0.27
rrl 1476034 n.2377_2378insACAT non_coding_transcript_exon_variant 0.25
rrl 1476046 n.2389G>T non_coding_transcript_exon_variant 0.21
rrl 1476048 n.2391G>T non_coding_transcript_exon_variant 0.21
rrl 1476049 n.2392C>G non_coding_transcript_exon_variant 0.21
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.12
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.12
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.13
rrl 1476188 n.2531C>T non_coding_transcript_exon_variant 0.12
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.18
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.17
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.11
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.14
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.11
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.11
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.13
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.12
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.19
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.31
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.14
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.25
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.21
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.17
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.15
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.11
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918530 c.591G>A synonymous_variant 1.0
katG 2154444 c.1668A>C synonymous_variant 1.0
PPE35 2169879 p.Phe245Cys missense_variant 1.0
PPE35 2170748 c.-136C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086742 c.-78A>C 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
embA 4243388 c.156C>T synonymous_variant 1.0
embB 4248955 c.2442C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0