TB-Profiler result

Run: ERR4815210
Summary

Run ID: ERR4815210

Sample name:

Date: 01-04-2023 13:44:21

Number of reads: 2058030

Percentage reads mapped: 99.48

Strain: lineage4.3.4.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 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 0.13 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 6817 c.-485G>A 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
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 1472489 n.644A>T non_coding_transcript_exon_variant 0.11
rrs 1472497 n.652G>A non_coding_transcript_exon_variant 0.12
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.21
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.13
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.13
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.14
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.14
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.13
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.21
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.14
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.15
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.11
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.1
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.12
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.11
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.11
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.11
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.11
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.11
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.11
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.11
rrl 1475743 n.2086T>C non_coding_transcript_exon_variant 0.18
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.2
rrl 1475762 n.2105G>C non_coding_transcript_exon_variant 0.2
rrl 1475830 n.2173G>T non_coding_transcript_exon_variant 0.4
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.14
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.17
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.17
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.19
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.11
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.15
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.13
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.25
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.17
rrl 1476298 n.2641C>A non_coding_transcript_exon_variant 0.2
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.22
rrl 1476309 n.2652G>T non_coding_transcript_exon_variant 0.23
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.19
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.19
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.17
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.12
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.12
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.12
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.12
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.11
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.11
rrl 1476535 n.2878G>A non_coding_transcript_exon_variant 0.1
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.1
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_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
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
rpoA 3878627 c.-120T>G upstream_gene_variant 0.75
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4239763 c.-100C>T upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.98