TB-Profiler result

Run: ERR2229251
Summary

Run ID: ERR2229251

Sample name:

Date: 31-03-2023 16:52:50

Number of reads: 1463034

Percentage reads mapped: 99.13

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
gyrA 7905 p.Phe202Leu missense_variant 0.12
fgd1 491115 c.333G>C synonymous_variant 0.11
mshA 576108 p.Ala254Gly missense_variant 0.24
rpoC 766900 c.3531T>C synonymous_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775826 c.2655G>A synonymous_variant 0.17
mmpL5 777482 c.999G>A synonymous_variant 0.13
mmpL5 778976 c.-496C>A upstream_gene_variant 0.12
mmpR5 779026 p.Glu13* stop_gained 0.13
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 1476147 n.2490G>T non_coding_transcript_exon_variant 0.14
fabG1 1673359 c.-81T>C upstream_gene_variant 0.12
fabG1 1673361 c.-79C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.35
inhA 1674478 p.His93Asn missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.19
PPE35 2170048 p.Leu189Val missense_variant 0.52
PPE35 2170053 p.Thr187Ser missense_variant 0.48
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289976 c.-735G>T upstream_gene_variant 0.17
folC 2747011 c.587delC frameshift_variant 0.11
folC 2747040 p.Ile187Leu missense_variant 0.12
Rv3236c 3612589 c.528C>A synonymous_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.25
rpoA 3878641 c.-134C>G upstream_gene_variant 0.29
embC 4241603 p.Phe581Ile missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.18
embB 4246567 c.54_55insT frameshift_variant 0.22
embB 4249734 p.Pro1074His missense_variant 0.14
aftB 4267003 c.1834C>A synonymous_variant 0.15
ethR 4327327 c.-222A>G upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0