TB-Profiler result

Run: ERR2229028
Summary

Run ID: ERR2229028

Sample name:

Date: 31-03-2023 16:31:01

Number of reads: 834282

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
ccsA 619848 c.-43C>T upstream_gene_variant 0.12
ccsA 620356 p.Leu156Ile missense_variant 0.15
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474905 n.1248T>A non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.16
PPE35 2167865 c.2748G>C synonymous_variant 0.11
PPE35 2167868 c.2745A>C synonymous_variant 0.1
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.17
PPE35 2169272 c.1341C>G synonymous_variant 0.15
PPE35 2169278 c.1335T>C synonymous_variant 0.25
PPE35 2169281 c.1332T>G synonymous_variant 0.25
PPE35 2169287 c.1326T>C synonymous_variant 0.2
PPE35 2169293 c.1320T>C synonymous_variant 0.18
PPE35 2169308 c.1305C>T synonymous_variant 0.14
PPE35 2169535 p.Gly360Arg missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860585 c.-167G>C upstream_gene_variant 0.22
pepQ 2860602 c.-184A>G upstream_gene_variant 0.18
Rv2752c 3065481 p.Cys237* stop_gained 0.18
Rv2752c 3065650 p.Arg181His missense_variant 0.11
rpoA 3878706 c.-199G>T upstream_gene_variant 0.29
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