TB-Profiler result

Run: ERR4818013
Summary

Run ID: ERR4818013

Sample name:

Date: 01-04-2023 15:19:23

Number of reads: 3392208

Percentage reads mapped: 98.05

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 0.61 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
rpoC 764995 c.1626C>G synonymous_variant 1.0
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 1472108 n.263C>T non_coding_transcript_exon_variant 0.18
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.11
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.17
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.29
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.13
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.25
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.3
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.13
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.29
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.41
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.17
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.14
rrs 1472484 n.639_640insC non_coding_transcript_exon_variant 0.29
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.43
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.5
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.38
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.15
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.38
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.38
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.63
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.48
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.5
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.53
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.12
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.53
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.57
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.48
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.39
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.64
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.14
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.51
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.5
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.48
rrs 1472691 n.846G>A non_coding_transcript_exon_variant 0.12
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.23
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.54
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.56
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.62
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.59
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.62
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.47
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.39
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.2
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.12
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.16
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.24
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.27
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.29
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.23
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.18
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.17
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.17
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.17
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.14
rrl 1474054 n.397T>C non_coding_transcript_exon_variant 0.33
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 0.6
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.6
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.6
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.43
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.43
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.42
rrl 1474448 n.791T>C non_coding_transcript_exon_variant 0.5
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.33
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.33
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 0.27
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.27
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.27
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.3
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.3
rrl 1474522 n.865C>A non_coding_transcript_exon_variant 0.17
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.27
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.45
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.33
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.27
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.11
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.1
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.1
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.1
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.12
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.25
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.27
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.28
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.23
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.11
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.12
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2746340 p.Ala420Val 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
embA 4243663 p.Asp144Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.99