TB-Profiler result

Run: ERR2229469
Summary

Run ID: ERR2229469

Sample name:

Date: 31-03-2023 17:13:27

Number of reads: 805018

Percentage reads mapped: 99.62

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
ccsA 619769 c.-122C>T upstream_gene_variant 0.12
rpoB 761478 p.Lys558* stop_gained 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303581 c.651G>T synonymous_variant 0.12
fbiC 1303610 p.Gly227Val missense_variant 0.11
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673503 p.Gly22Arg missense_variant 0.11
fabG1 1673560 p.Lys41Leu missense_variant 0.13
inhA 1674474 c.273G>T synonymous_variant 0.18
inhA 1674894 p.Asn231Lys missense_variant 0.14
inhA 1674923 p.Thr241Arg missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167790 c.2823C>T synonymous_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169443 c.1170T>C synonymous_variant 0.11
PPE35 2169569 c.1024_1043delGGGAACTCCGGTAACTTCAG frameshift_variant 0.11
PPE35 2170451 c.162C>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.11
kasA 2518609 p.Met165Ile missense_variant 0.12
kasA 2519127 p.Ala338Glu missense_variant 0.11
eis 2715012 c.321C>G synonymous_variant 0.18
folC 2747369 p.Ser77* stop_gained 0.12
thyA 3074588 c.-117A>G upstream_gene_variant 0.11
fbiB 3642047 c.513G>C synonymous_variant 0.18
fbiB 3642396 p.Ala288Pro missense_variant 0.14
rpoA 3877950 c.558C>A synonymous_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244821 p.Gly530Val missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408258 c.-56C>A upstream_gene_variant 0.12
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0