TB-Profiler result

Run: ERR4818853
Summary

Run ID: ERR4818853

Sample name:

Date: 01-04-2023 15:47:27

Number of reads: 2244445

Percentage reads mapped: 96.03

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H 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 0.48 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 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 1.0
embR 1417140 p.Ala70Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.5
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.5
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.3
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.18
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.2
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.86
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.67
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.44
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.5
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.5
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.4
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.67
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.75
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.67
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.73
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.16
rrs 1472564 n.719A>G non_coding_transcript_exon_variant 0.11
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.68
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.16
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.68
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.5
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.3
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.84
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.19
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.69
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.69
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.13
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.33
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.67
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.33
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.64
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.2
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.44
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.48
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.48
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.16
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.52
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.17
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.52
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.53
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.43
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.38
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.36
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.33
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.42
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.42
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.5
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.4
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.33
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.67
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.33
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.38
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.38
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.27
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.21
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.23
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.14
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.14
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.22
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.3
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.22
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.22
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.18
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.17
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.25
rrl 1473603 n.-55C>T upstream_gene_variant 0.11
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.75
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 1.0
rrl 1474200 n.545delT non_coding_transcript_exon_variant 1.0
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>C non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474253 n.596A>C non_coding_transcript_exon_variant 0.75
rrl 1474254 n.597C>T non_coding_transcript_exon_variant 0.75
rrl 1474475 n.818A>T non_coding_transcript_exon_variant 0.5
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.5
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.67
rrl 1475713 n.2056C>T non_coding_transcript_exon_variant 0.5
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.4
rrl 1475758 n.2101A>G non_coding_transcript_exon_variant 0.4
rrl 1475759 n.2102C>A non_coding_transcript_exon_variant 0.4
rrl 1475760 n.2103C>T non_coding_transcript_exon_variant 0.4
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.4
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.4
rrl 1475764 n.2107A>T non_coding_transcript_exon_variant 0.4
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.4
rrl 1475769 n.2112_2113insC non_coding_transcript_exon_variant 0.4
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.44
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.44
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.3
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.27
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.4
fabG1 1673249 c.-191C>T upstream_gene_variant 1.0
rpsA 1834261 c.720A>G synonymous_variant 0.1
rpsA 1834264 c.723G>C synonymous_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747022 p.Val193Ile missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448894 p.Tyr131Asp missense_variant 1.0
Rv3083 3449642 p.Asn380Ser missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641164 p.Ile208Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4268861 c.-25T>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0