TB-Profiler result

Run: ERR4819501
Summary

Run ID: ERR4819501

Sample name:

Date: 01-04-2023 16:08:46

Number of reads: 670651

Percentage reads mapped: 94.74

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 0.99
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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.75 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
gyrB 5773 c.534T>C synonymous_variant 0.11
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 490941 p.Phe53Leu missense_variant 0.1
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761642 c.1836G>C synonymous_variant 1.0
rpoB 761643 p.Val613Phe 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
rpsL 781655 c.96T>C synonymous_variant 0.1
rpsL 781682 c.123T>G synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471886 n.43_44delCG non_coding_transcript_exon_variant 0.25
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 1.0
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.75
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.75
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.75
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.8
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.8
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.75
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.6
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.8
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 1.0
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 1.0
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.75
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.75
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.78
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.78
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.77
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.77
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.83
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.17
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.82
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.88
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.67
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.4
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.4
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.4
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.4
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.4
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.4
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.4
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.33
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.33
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.4
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.4
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.4
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.4
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 1.0
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 1.0
rrl 1475892 n.2235A>G non_coding_transcript_exon_variant 1.0
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.5
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.5
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.67
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.6
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746787 p.Ala271Val missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449637 c.1134G>T synonymous_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
panD 4044322 c.-41G>A upstream_gene_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246160 c.-354G>A upstream_gene_variant 0.12
embB 4248242 p.Val577Ile missense_variant 0.1
ethA 4328136 c.-663T>C upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0