TB-Profiler result

Run: ERR4814963
Summary

Run ID: ERR4814963

Sample name:

Date: 01-04-2023 13:35:26

Number of reads: 1545062

Percentage reads mapped: 98.87

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 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.25 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 5128 c.-111delA upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7907 p.Phe202Leu 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 760042 p.Gly79Val missense_variant 0.11
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
atpE 1461035 c.-10G>T upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.4
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.62
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.25
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.38
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.83
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.8
rrs 1472912 n.1067C>T non_coding_transcript_exon_variant 0.29
rrs 1472917 n.1072G>A non_coding_transcript_exon_variant 0.33
rrl 1473695 n.39_40delTC non_coding_transcript_exon_variant 0.29
rrl 1473700 n.43G>C non_coding_transcript_exon_variant 0.29
rrl 1473702 n.45_46insGA non_coding_transcript_exon_variant 0.29
rrl 1473717 n.60G>T non_coding_transcript_exon_variant 0.25
rrl 1473718 n.61G>T non_coding_transcript_exon_variant 0.25
rrl 1473744 n.87T>C non_coding_transcript_exon_variant 0.22
rrl 1473746 n.89T>C non_coding_transcript_exon_variant 0.22
rrl 1473748 n.91A>G non_coding_transcript_exon_variant 0.22
rrl 1473751 n.94C>A non_coding_transcript_exon_variant 0.22
rrl 1473753 n.96A>G non_coding_transcript_exon_variant 0.22
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.22
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.25
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.67
rrl 1474202 n.545T>G non_coding_transcript_exon_variant 0.67
rrl 1474249 n.592G>C non_coding_transcript_exon_variant 1.0
rrl 1475504 n.1847C>A non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726274 p.Ala28Thr missense_variant 0.12
Rv2752c 3065207 p.Thr329Pro missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
ethR 4326613 c.-936G>A upstream_gene_variant 1.0
ethA 4327389 p.Thr29Ala missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0