TB-Profiler result

Run: SRR6046003
Summary

Run ID: SRR6046003

Sample name:

Date: 04-04-2023 12:09:22

Number of reads: 1155996

Percentage reads mapped: 93.14

Strain: lineage4.9

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
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
mshA 575533 c.186C>T synonymous_variant 0.22
ccsA 619831 c.-60T>G upstream_gene_variant 0.42
ccsA 620084 p.Ala65Val missense_variant 0.12
rpoC 764996 p.Val543Met missense_variant 0.12
rpoC 766584 p.Gly1072Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304138 p.Ala403Gly missense_variant 0.29
fbiC 1304493 c.1563C>T synonymous_variant 0.11
Rv1258c 1407084 p.Val86Gly missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473416 n.-242G>T upstream_gene_variant 0.12
rrl 1473593 n.-65A>G upstream_gene_variant 1.0
rrl 1476606 n.2949A>C non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714931 c.402T>C synonymous_variant 0.11
fbiB 3642080 c.546A>T synonymous_variant 0.1
fbiB 3642507 p.Gly325Ser missense_variant 1.0
clpC1 4039328 c.1377A>T synonymous_variant 0.1
embC 4240035 p.Gln58Arg missense_variant 0.11
embC 4241443 c.1582delG frameshift_variant 0.17
embC 4243077 p.Pro1072Leu missense_variant 0.13
whiB6 4338231 c.291C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0