TB-Profiler result

Run: ERR039343

Summary

Run ID: ERR039343

Sample name:

Date: 31-03-2023 08:43:28

Number of reads: 10604538

Percentage reads mapped: 99.19

Strain: lineage4.4.1.2

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.2 Euro-American T1 None 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.31
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.27
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167770 p.Ser948Ile missense_variant 0.99
PPE35 2167871 c.2742G>C synonymous_variant 0.24
PPE35 2169320 p.Leu431Phe missense_variant 0.2
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.35
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.21
eis 2715586 c.-254G>C upstream_gene_variant 0.41
pepQ 2859381 c.1038C>G synonymous_variant 0.26
pepQ 2860213 p.Pro69Leu missense_variant 1.0
Rv2752c 3064552 p.Arg547Pro missense_variant 0.22
Rv2752c 3064594 p.Val533Ala missense_variant 1.0
Rv2752c 3064741 p.Gly484Ala missense_variant 0.26
thyA 3073806 c.666C>G synonymous_variant 0.24
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.19
fbiB 3642734 c.1200G>C synonymous_variant 0.21
fbiB 3642772 p.Asp413Ala missense_variant 0.17
rpoA 3878238 p.Asp90Glu missense_variant 0.16
clpC1 4038857 c.1848C>A synonymous_variant 0.2
clpC1 4039932 p.Gly258Val missense_variant 0.3
embC 4241873 c.2011C>T synonymous_variant 0.91
embC 4242425 p.Arg855Gly missense_variant 0.19
embC 4242476 p.Pro872Ala missense_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.34
embC 4242827 p.Leu989Val missense_variant 0.19
embA 4245250 p.His673Arg missense_variant 1.0
embB 4248769 c.2256C>T synonymous_variant 1.0
embB 4249012 c.2499G>A synonymous_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.24
ethA 4327672 c.-199G>A upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0