TB-Profiler result

Run: ERR037477
Summary

Run ID: ERR037477

Sample name:

Date: 31-03-2023 08:32:56

Number of reads: 17494196

Percentage reads mapped: 99.5

Strain: lineage4.6.1.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.2 Euro-American T2 RD724 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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762674 p.Glu956Asp missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.29
rpoC 764810 p.Pro481Thr missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416410 p.Leu313Arg missense_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.24
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.17
PPE35 2169866 c.747G>C synonymous_variant 0.37
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.26
eis 2715586 c.-254G>C upstream_gene_variant 0.38
pepQ 2859381 c.1038C>G synonymous_variant 0.29
Rv2752c 3064552 p.Arg547Pro missense_variant 0.18
Rv2752c 3064741 p.Gly484Ala missense_variant 0.25
thyA 3073806 c.666C>G synonymous_variant 0.2
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 0.23
rpoA 3878238 p.Asp90Glu missense_variant 0.18
clpC1 4038857 c.1848C>A synonymous_variant 0.15
clpC1 4039932 p.Gly258Val missense_variant 0.27
embC 4239842 c.-21C>A upstream_gene_variant 0.14
embC 4241456 p.Ala532Pro missense_variant 0.41
embC 4242425 p.Arg855Gly missense_variant 0.16
embC 4242476 p.Pro872Ala missense_variant 0.26
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.41
embA 4243739 p.Gln169His missense_variant 1.0
embA 4245055 p.Thr608Asn missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.2
ethA 4327672 c.-199G>A upstream_gene_variant 0.26
whiB6 4338287 c.234_235insC frameshift_variant 0.8
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408345 c.-143C>T upstream_gene_variant 1.0
whiB6 4337693 c.234_*477del frameshift_variant&stop_lost&splice_region_variant 1.0