TB-Profiler result

Run: ERR245771

Summary

Run ID: ERR245771

Sample name:

Date: 31-03-2023 18:20:26

Number of reads: 11791852

Percentage reads mapped: 99.71

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
ccsA 620407 p.Pro173Ala missense_variant 0.24
rpoB 759831 p.Thr9Pro missense_variant 0.27
rpoC 762836 c.-534C>G upstream_gene_variant 0.35
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777292 p.Ala397Ser missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.28
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.19
inhA 1674892 p.Asn231Asp missense_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.21
PPE35 2167871 c.2742G>C synonymous_variant 0.2
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.22
eis 2715586 c.-254G>C upstream_gene_variant 0.6
ahpC 2726383 c.192_196delGATCG frameshift_variant 0.99
ribD 2987307 p.Ala157Pro missense_variant 0.17
Rv2752c 3064552 p.Arg547Pro missense_variant 0.18
Rv2752c 3064741 p.Gly484Ala missense_variant 0.25
thyA 3073806 c.666C>G synonymous_variant 0.25
thyA 3073817 p.Gln219Glu missense_variant 0.28
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.26
fbiB 3642734 c.1200G>C synonymous_variant 0.24
ddn 3987013 p.Gly57Ala missense_variant 0.26
clpC1 4038857 c.1848C>A synonymous_variant 0.21
clpC1 4039729 p.Asp326Asn missense_variant 1.0
clpC1 4039932 p.Gly258Val missense_variant 0.21
embC 4241429 p.Phe523Val missense_variant 0.35
embC 4242425 p.Arg855Gly missense_variant 0.15
embC 4242476 p.Pro872Ala missense_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.32
embA 4246161 p.Val977Leu missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.19
ethA 4327672 c.-199G>A upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0