TB-Profiler result

Run: ERR2514708
Summary

Run ID: ERR2514708

Sample name:

Date: 31-03-2023 20:30:50

Number of reads: 843801

Percentage reads mapped: 98.1

Strain: lineage4.1.2.1

Drug-resistance: Sensitive

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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
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.2
rpoB 760106 c.300G>A synonymous_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761018 c.1212G>A synonymous_variant 0.13
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777119 p.His454Gln missense_variant 0.14
mmpL5 777122 c.1359C>T synonymous_variant 0.15
mmpL5 777128 c.1353A>G synonymous_variant 0.16
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416996 p.Glu118Lys missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474451 n.794T>C non_coding_transcript_exon_variant 0.67
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.67
rrl 1474468 n.811G>A non_coding_transcript_exon_variant 0.67
rrl 1474476 n.819C>G non_coding_transcript_exon_variant 0.75
rrl 1474479 n.822A>C non_coding_transcript_exon_variant 0.75
rrl 1474483 n.826C>G non_coding_transcript_exon_variant 0.75
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.75
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.75
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.5
rrl 1474529 n.872A>G non_coding_transcript_exon_variant 0.5
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.38
rrl 1474540 n.883T>C non_coding_transcript_exon_variant 0.38
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.38
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.38
rrl 1474555 n.898T>G non_coding_transcript_exon_variant 0.38
rrl 1474558 n.901G>C non_coding_transcript_exon_variant 0.38
rrl 1474581 n.924C>T non_coding_transcript_exon_variant 0.33
inhA 1674890 p.Trp230Ser missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.15
PPE35 2169910 p.Asn235Tyr missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223330 c.-166C>T upstream_gene_variant 0.12
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518326 p.His71Arg missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4268370 p.Val156Asp missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0