TB-Profiler result

Run: ERR2228886
Summary

Run ID: ERR2228886

Sample name:

Date: 31-03-2023 16:24:56

Number of reads: 1414463

Percentage reads mapped: 99.57

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
fgd1 491295 c.513C>G synonymous_variant 0.15
rpoB 762543 p.Thr913Ser missense_variant 0.13
rpoB 763149 p.Phe1115Leu missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777119 p.His454Gln missense_variant 0.35
mmpL5 777122 c.1359C>T synonymous_variant 0.35
mmpL5 777128 c.1353A>G synonymous_variant 0.28
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1407039 p.Val101Gly missense_variant 0.28
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
inhA 1673934 c.-268C>T upstream_gene_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.29
PPE35 2167965 p.Ala883Gly missense_variant 0.21
PPE35 2167967 c.2646A>C synonymous_variant 0.21
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168876 p.Phe579Leu missense_variant 0.15
PPE35 2169056 c.1557A>T synonymous_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.18
PPE35 2170053 p.Thr187Ser missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.12
kasA 2519143 c.1029G>C synonymous_variant 0.11
Rv2752c 3065364 c.828G>T synonymous_variant 0.18
ald 3086727 c.-93G>A upstream_gene_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.15
rpoA 3878490 c.18C>G synonymous_variant 0.64
clpC1 4039645 p.His354Asp missense_variant 0.14
clpC1 4039654 p.Thr351Ser missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244825 c.1593G>T synonymous_variant 0.12
aftB 4267975 p.Ser288Ala missense_variant 0.22
ethA 4328025 c.-552T>G upstream_gene_variant 0.16
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0