TB-Profiler result

Run: ERR4814730
Summary

Run ID: ERR4814730

Sample name:

Date: 01-04-2023 13:27:29

Number of reads: 1969215

Percentage reads mapped: 99.39

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 1472644 n.799C>T non_coding_transcript_exon_variant 0.13 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
ccsA 620223 c.333C>T synonymous_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 1472655 n.810G>T non_coding_transcript_exon_variant 0.13
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.12
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.13
rrs 1472674 n.829T>G non_coding_transcript_exon_variant 0.13
rrs 1472675 n.830T>A non_coding_transcript_exon_variant 0.13
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.13
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.13
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475645 n.1988C>A non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289808 c.-567C>T upstream_gene_variant 1.0
eis 2715057 c.276C>T synonymous_variant 0.12
eis 2715060 p.His91Met missense_variant 0.12
eis 2715065 p.Thr90Ala missense_variant 0.12
ald 3086796 c.-24C>T upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0