TB-Profiler result

Run: ERR039341
Summary

Run ID: ERR039341

Sample name:

Date: 31-03-2023 08:43:25

Number of reads: 10906324

Percentage reads mapped: 99.49

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
rpoC 762836 c.-534C>G upstream_gene_variant 0.3
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460992 c.-53A>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288982 p.Thr87Met missense_variant 0.99
eis 2714366 p.Val323Leu missense_variant 0.24
eis 2715586 c.-254G>C upstream_gene_variant 0.42
ribD 2987307 p.Ala157Pro missense_variant 0.23
thyX 3067535 c.411C>T synonymous_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.24
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.26
fbiB 3642734 c.1200G>C synonymous_variant 0.26
fbiB 3642772 p.Asp413Ala missense_variant 0.18
alr 3840764 c.657G>C synonymous_variant 1.0
rpoA 3878051 p.Arg153Trp missense_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.19
clpC1 4039932 p.Gly258Val missense_variant 0.27
embC 4242425 p.Arg855Gly missense_variant 0.16
embC 4242476 p.Pro872Ala missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.42
ubiA 4269529 p.Ala102Gly missense_variant 0.19
ethA 4327672 c.-199G>A upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448500 c.-3_*1408del transcript_ablation 1.0