TB-Profiler result

Run: ERR2229044
Summary

Run ID: ERR2229044

Sample name:

Date: 31-03-2023 16:31:45

Number of reads: 874742

Percentage reads mapped: 99.59

Strain: lineage4.8

Drug-resistance: Sensitive

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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
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 759615 c.-192A>C upstream_gene_variant 0.29
rpoB 759865 c.61delT frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303816 p.Arg296Cys missense_variant 0.12
fbiC 1304195 p.Thr422Ile missense_variant 0.17
Rv1258c 1407473 c.-133C>A upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476517 n.2860C>A non_coding_transcript_exon_variant 0.11
rpsA 1833775 p.Glu78Asp missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155822 p.His97Leu missense_variant 0.14
PPE35 2167767 p.Gly949Val missense_variant 0.1
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169587 c.1026G>A synonymous_variant 0.11
PPE35 2169590 c.1023C>A synonymous_variant 0.11
PPE35 2170095 p.Arg173Gln missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726315 p.Asp41Glu missense_variant 0.12
ahpC 2726341 p.Val50Gly missense_variant 0.21
thyA 3074312 c.159delA frameshift_variant 0.13
fprA 3474897 c.891C>T synonymous_variant 0.12
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.11
fbiB 3641624 c.90C>T synonymous_variant 0.12
embC 4241731 c.1869C>A synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243456 p.Pro75His missense_variant 0.1
embA 4244184 p.Ser318Leu missense_variant 0.12
embA 4245766 p.Glu845Gly missense_variant 0.1
embB 4249579 p.Lys1022Asn missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0