TB-Profiler result

Run: ERR2229416
Summary

Run ID: ERR2229416

Sample name:

Date: 12-08-2022 14:37:44

Number of reads: 1919086

Percentage reads mapped: 99.32

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
mshA 575660 p.Pro105Thr missense_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.32
mshA 576111 p.Ala255Gly missense_variant 0.2
rpoC 767049 p.Gln1227Arg missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775743 p.Gly913Val missense_variant 0.12
mmpS5 778835 p.Thr24Lys missense_variant 0.12
mmpL5 778926 c.-446A>G upstream_gene_variant 0.11
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 1473614 n.-44C>A upstream_gene_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169272 c.1341C>G synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.43
PPE35 2170053 p.Thr187Ser missense_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289865 c.-624C>A upstream_gene_variant 0.14
kasA 2518982 p.Ala290Ser missense_variant 0.11
kasA 2519255 p.Asp381Asn missense_variant 0.13
kasA 2519277 p.Glu388Gly missense_variant 0.11
eis 2714834 p.Arg167* stop_gained 0.2
eis 2714839 p.Leu165Trp missense_variant 0.2
Rv2752c 3067092 c.-901C>A upstream_gene_variant 0.13
panD 4044193 p.Ala30Asp missense_variant 0.14
panD 4044311 c.-30G>T upstream_gene_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244305 p.Arg358Leu missense_variant 0.14
embB 4246544 p.Thr11Pro missense_variant 0.15
embB 4246548 p.Pro12Gln missense_variant 0.38
embB 4246555 c.42G>C synonymous_variant 0.43
embB 4246556 p.Ala15Pro missense_variant 0.43
embB 4246563 p.Leu17Trp missense_variant 0.33
embB 4246567 c.54G>T synonymous_variant 0.19
embB 4246747 p.Asp78Glu missense_variant 0.12
aftB 4267933 p.Ala302Pro missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0