TB-Profiler result

Run: ERR4818873
Summary

Run ID: ERR4818873

Sample name:

Date: 01-04-2023 15:47:59

Number of reads: 4661777

Percentage reads mapped: 96.42

Strain: lineage4.1.2

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
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 0.5 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9037 p.Ala579Val missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764263 c.894G>A synonymous_variant 0.98
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.33
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.33
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.33
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.33
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.45
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.45
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.45
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.42
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrl 1473668 n.11C>A non_coding_transcript_exon_variant 0.14
rrl 1473731 n.74T>A non_coding_transcript_exon_variant 0.17
rrl 1473746 n.89T>C non_coding_transcript_exon_variant 0.13
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.17
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.17
rrl 1473770 n.113T>C non_coding_transcript_exon_variant 0.17
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.25
rrl 1473812 n.155G>A non_coding_transcript_exon_variant 0.25
rrl 1473814 n.157A>T non_coding_transcript_exon_variant 0.15
rrl 1473815 n.158T>G non_coding_transcript_exon_variant 0.15
rrl 1473829 n.172G>C non_coding_transcript_exon_variant 0.38
rrl 1473831 n.174G>T non_coding_transcript_exon_variant 0.4
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.4
rrl 1473839 n.182G>A non_coding_transcript_exon_variant 0.4
rrl 1474496 n.839C>G non_coding_transcript_exon_variant 1.0
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 1.0
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 1.0
rrl 1474507 n.850G>C non_coding_transcript_exon_variant 1.0
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.5
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.4
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.4
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.4
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.4
rrl 1474639 n.982G>T non_coding_transcript_exon_variant 0.4
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.4
rrl 1474829 n.1175delA non_coding_transcript_exon_variant 0.67
rrl 1475443 n.1786G>A non_coding_transcript_exon_variant 0.4
rrl 1475452 n.1795C>A non_coding_transcript_exon_variant 0.4
rrl 1475475 n.1818C>T non_coding_transcript_exon_variant 0.5
rrl 1475479 n.1822C>T non_coding_transcript_exon_variant 0.5
rrl 1475480 n.1823A>T non_coding_transcript_exon_variant 0.5
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.57
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.8
rrl 1475531 n.1874C>T non_coding_transcript_exon_variant 0.8
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
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
ddn 3987259 p.Trp139* stop_gained 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249078 c.2565G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0