TB-Profiler result

Run: ERR2229117
Summary

Run ID: ERR2229117

Sample name:

Date: 31-03-2023 16:42:05

Number of reads: 1511579

Percentage reads mapped: 99.5

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 575555 p.Val70Phe missense_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.31
rpoC 764351 p.Val328Met missense_variant 0.12
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
Rv1258c 1407530 c.-190A>G upstream_gene_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474975 n.1318G>T non_coding_transcript_exon_variant 0.17
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673349 c.-91G>C upstream_gene_variant 0.13
fabG1 1673357 c.-83G>A upstream_gene_variant 0.16
fabG1 1673359 c.-81T>C upstream_gene_variant 0.16
fabG1 1673361 c.-79C>G upstream_gene_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
inhA 1674962 c.764delG frameshift_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2169910 p.Asn235Tyr missense_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.24
PPE35 2170053 p.Thr187Ser missense_variant 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519183 p.Leu357Ile missense_variant 0.12
ribD 2987302 p.Arg155Leu missense_variant 0.12
ribD 2987419 p.Gly194Val missense_variant 0.17
Rv2752c 3064628 p.Asn522Asp missense_variant 0.17
ald 3087235 p.Arg139Leu missense_variant 0.14
ald 3087819 c.1000C>A synonymous_variant 0.17
fbiB 3641956 p.Gly141Asp missense_variant 0.12
fbiB 3641966 c.432C>A synonymous_variant 0.13
fbiB 3641997 p.Ala155Ser missense_variant 0.12
fbiB 3642043 p.Leu170Pro missense_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.17
panD 4044274 p.Arg3Leu missense_variant 0.12
panD 4044285 c.-4A>G upstream_gene_variant 0.12
panD 4044322 c.-41G>A upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244598 p.Leu456Met missense_variant 0.11
embB 4246555 c.42G>C synonymous_variant 0.18
embB 4246556 p.Ala15Pro missense_variant 0.18
embB 4246563 p.Leu17Trp missense_variant 0.18
embB 4246567 c.54G>T synonymous_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0