TB-Profiler result

Run: ERR2517627
Summary

Run ID: ERR2517627

Sample name:

Date: 31-03-2023 22:20:42

Number of reads: 3074602

Percentage reads mapped: 94.85

Strain: lineage4.8

Drug-resistance: RR-TB

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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
rpoB 761089 p.Ser428Thr missense_variant 0.11 rifampicin
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
rpoB 760127 p.Asp107Glu missense_variant 1.0
rpoB 761084 c.1278C>A synonymous_variant 0.11
rpoB 762053 c.2247T>C synonymous_variant 0.11
rpoB 762057 p.Ile751Val missense_variant 0.11
rpoB 762062 c.2256T>C synonymous_variant 0.11
rpoB 762071 p.Asp755Glu missense_variant 0.11
rpoB 762080 c.2274G>C synonymous_variant 0.1
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 1472108 n.263C>T non_coding_transcript_exon_variant 0.16
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.15
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.15
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.15
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.18
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.18
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.18
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.11
rrs 1473288 n.1443C>G non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.15
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.21
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.22
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.22
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.13
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.12
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 2290199 c.-959delA upstream_gene_variant 1.0
Rv2752c 3065019 c.1173C>T synonymous_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
rpoA 3878561 c.-54C>A upstream_gene_variant 0.22
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