TB-Profiler result

Run: ERR245650
Summary

Run ID: ERR245650

Sample name:

Date: 31-03-2023 18:12:12

Number of reads: 13074508

Percentage reads mapped: 99.56

Strain: lineage4.9.1

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
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
lineage4.9.1 Euro-American (H37Rv-like) 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 7493 c.192C>T synonymous_variant 0.35
gyrA 8978 c.1677C>T synonymous_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.29
mshA 576751 p.Lys468Asn missense_variant 0.24
ccsA 620407 p.Pro173Ala missense_variant 0.22
rpoB 762249 p.Leu815Val missense_variant 0.17
rpoC 762836 c.-534C>G upstream_gene_variant 0.24
rpoC 764725 p.Phe452Leu missense_variant 0.19
rpoC 767305 p.Tyr1312* stop_gained 0.16
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417136 p.Ser71Ile missense_variant 0.17
atpE 1461019 c.-26C>A upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.21
inhA 1674952 p.Pro251Ala missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.19
ndh 2102891 p.Phe51Ser missense_variant 0.18
PPE35 2169379 p.Phe412Val missense_variant 0.21
PPE35 2169866 c.747G>C synonymous_variant 0.23
Rv1979c 2223145 p.Arg7Lys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
pncA 2289448 c.-207G>A upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.19
eis 2715586 c.-254G>C upstream_gene_variant 0.47
folC 2746186 c.1413G>C synonymous_variant 0.24
pepQ 2859381 c.1038C>G synonymous_variant 0.17
Rv2752c 3064741 p.Gly484Ala missense_variant 0.27
Rv2752c 3067191 c.-1000G>A upstream_gene_variant 1.0
thyA 3073817 p.Gln219Glu missense_variant 0.2
fbiD 3339385 p.Asp90Asn missense_variant 1.0
Rv3236c 3611982 p.Ala379Pro missense_variant 0.33
fbiB 3641955 p.Gly141Arg missense_variant 0.32
fbiB 3642734 c.1200G>C synonymous_variant 0.22
ddn 3987013 p.Gly57Ala missense_variant 0.21
clpC1 4038857 c.1848C>A synonymous_variant 0.19
clpC1 4039932 p.Gly258Val missense_variant 0.31
embC 4241056 c.1194C>G synonymous_variant 0.26
embC 4242476 p.Pro872Ala missense_variant 0.23
embC 4242822 p.Val987Gly missense_variant 0.39
embC 4242827 p.Leu989Val missense_variant 0.24
embA 4244375 c.1143C>G synonymous_variant 0.34
embB 4247041 c.528C>T synonymous_variant 0.23
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