TB-Profiler result

Run: ERR4821635
Summary

Run ID: ERR4821635

Sample name:

Date: 01-04-2023 17:22:02

Number of reads: 2426128

Percentage reads mapped: 99.14

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 1472733 n.888G>A non_coding_transcript_exon_variant 0.17 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
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416557 p.Lys264Thr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.15
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.12
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.12
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.1
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.16
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.12
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.24
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.1
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.11
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.17
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.25
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.2
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.2
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.18
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.2
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.5
rrl 1473453 n.-205G>T upstream_gene_variant 0.25
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.67
rrl 1475262 n.1605G>C non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3840764 c.657G>C synonymous_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