TB-Profiler result

Run: ERR4819969
Summary

Run ID: ERR4819969

Sample name:

Date: 01-04-2023 16:24:29

Number of reads: 544132

Percentage reads mapped: 98.36

Strain: lineage4

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
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
gyrA 8656 p.Ile452Thr missense_variant 1.0
gyrA 9071 c.1770G>A synonymous_variant 0.22
fgd1 490965 c.183C>T synonymous_variant 0.18
fgd1 491247 c.465C>T synonymous_variant 1.0
rpoC 766737 p.Arg1123Gln missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776664 p.Thr606Asn missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673961 c.-241A>C upstream_gene_variant 1.0
inhA 1674951 c.752delC frameshift_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170812 c.-200G>A upstream_gene_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.75
kasA 2519286 p.Tyr391Cys missense_variant 0.15
pepQ 2859318 p.Lys367Asn missense_variant 1.0
Rv2752c 3065102 p.Thr364Ala missense_variant 0.15
thyX 3067747 p.Val67Leu missense_variant 0.11
ald 3087733 p.Val305Ala missense_variant 0.18
Rv3083 3449810 c.1308dupC frameshift_variant 0.13
rpoA 3878271 c.237T>C synonymous_variant 0.2
rpoA 3878284 p.Glu75Ala missense_variant 0.2
rpoA 3878292 c.216T>C synonymous_variant 0.22
rpoA 3878298 c.210A>G synonymous_variant 0.2
rpoA 3878304 c.204G>C synonymous_variant 0.2
rpoA 3878313 c.195G>C synonymous_variant 0.2
rpoA 3878322 c.186A>G synonymous_variant 0.2
clpC1 4040823 c.-119C>T upstream_gene_variant 0.1
embC 4240602 p.Ala247Val missense_variant 0.12
embC 4240828 c.967_969delCCT conservative_inframe_deletion 0.18
embC 4241271 p.Leu470Pro missense_variant 0.14
embC 4241761 c.1899G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243310 c.78G>T synonymous_variant 1.0
embA 4245863 p.Ile877Met missense_variant 0.14
embB 4247903 c.1390C>A synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407715 c.485_487dupTCA conservative_inframe_insertion 0.11