TB-Profiler result

Run: ERR2510617
Summary

Run ID: ERR2510617

Sample name:

Date: 31-03-2023 18:50:29

Number of reads: 742797

Percentage reads mapped: 99.7

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 1.0 rifampicin
katG 2155168 p.Ser315Asn 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
gyrB 6992 p.Arg585Ser missense_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491015 p.Thr78Ile missense_variant 0.11
mshA 576108 p.Ala254Gly missense_variant 0.26
rpoB 761032 p.Gln409Arg missense_variant 0.22
rpoC 763740 p.Asp124Gly missense_variant 0.1
rpoC 763761 p.Phe131Ser missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800759 c.-50C>T upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471726 n.-120A>G upstream_gene_variant 0.12
rrl 1473987 n.330G>T non_coding_transcript_exon_variant 0.33
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474742 n.1085A>T non_coding_transcript_exon_variant 0.14
rpsA 1834537 p.Glu332Asp missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101877 p.Gly389Asp missense_variant 0.11
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169013 p.Val534Leu missense_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.13
PPE35 2170053 p.Thr187Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714606 p.Ala243Thr missense_variant 1.0
Rv2752c 3065512 p.Arg227Leu missense_variant 0.17
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3840716 c.705G>C synonymous_variant 1.0
rpoA 3877864 p.Leu215Gln missense_variant 0.13
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embC 4241648 p.Leu596Val missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244859 p.Gly543Trp missense_variant 0.17
embA 4245592 p.Val787Gly missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0