TB-Profiler result

Run: ERR4816998
Summary

Run ID: ERR4816998

Sample name:

Date: 01-04-2023 14:44:55

Number of reads: 1338266

Percentage reads mapped: 98.05

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 0.99
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
gyrB 6438 p.Pro400Arg missense_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
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
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471985 n.140T>C non_coding_transcript_exon_variant 0.25
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.25
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.4
rrs 1472846 n.1001C>T non_coding_transcript_exon_variant 0.2
rrs 1472847 n.1002G>A non_coding_transcript_exon_variant 0.2
rrs 1472848 n.1003T>C non_coding_transcript_exon_variant 0.2
rrs 1472860 n.1015C>T non_coding_transcript_exon_variant 0.2
rrs 1472861 n.1016G>A non_coding_transcript_exon_variant 0.2
rrs 1473162 n.1317C>A non_coding_transcript_exon_variant 0.25
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.2
rrs 1473280 n.1435G>C non_coding_transcript_exon_variant 0.22
rrl 1473476 n.-182T>A upstream_gene_variant 0.2
rrl 1474717 n.1060A>G non_coding_transcript_exon_variant 0.5
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.4
rrl 1474743 n.1086T>G non_coding_transcript_exon_variant 0.67
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.67
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.4
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.4
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.4
rrl 1476477 n.2820G>A non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.15
PPE35 2169910 p.Asn235Tyr missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878103 c.405A>G synonymous_variant 0.11
rpoA 3878118 c.390T>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0