TB-Profiler result

Run: ERR5865065
Summary

Run ID: ERR5865065

Sample name:

Date: 01-04-2023 23:46:12

Number of reads: 5160947

Percentage reads mapped: 86.01

Strain: lineage4.8

Drug-resistance: MDR-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 761155 p.Ser450Leu missense_variant 0.99 rifampicin
rrs 1472723 n.878G>A non_coding_transcript_exon_variant 0.91 streptomycin
katG 2155167 p.Ser315Gly missense_variant 1.0 isoniazid
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
rpoC 765862 p.Phe831Leu missense_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 1472742 n.897C>T non_coding_transcript_exon_variant 0.19
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.2
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.22
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.19
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.1
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.12
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.13
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.14
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.16
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.15
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.24
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.25
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.28
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.28
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.28
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.29
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.29
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.3
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.3
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.3
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.3
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.35
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.35
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.35
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.32
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.31
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.29
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.29
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.28
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.29
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.17
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
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