TB-Profiler result

Run: SRR4034487
Summary

Run ID: SRR4034487

Sample name:

Date: 04-04-2023 06:50:09

Number of reads: 167638

Percentage reads mapped: 99.73

Strain: lineage4.9;lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.05
lineage4.9 Euro-American (H37Rv-like) T1 None 0.88
lineage4.3.2 Euro-American (LAM) LAM3 None 0.11
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
gyrB 6177 c.939delC frameshift_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760394 c.588C>A synonymous_variant 1.0
rpoB 760782 p.Thr326Ala missense_variant 0.25
rpoC 762719 c.-651C>T upstream_gene_variant 0.67
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776203 p.Gly760Ser missense_variant 0.5
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303454 p.Arg175His missense_variant 0.67
embR 1416929 p.Ala140Val missense_variant 0.67
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rpsA 1834564 c.1023C>T synonymous_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289451 c.-210G>A upstream_gene_variant 0.5
pncA 2289514 c.-273C>T upstream_gene_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4246000 p.Arg923His missense_variant 0.29
aftB 4268414 c.423C>T synonymous_variant 0.67
aftB 4269528 c.-692G>A upstream_gene_variant 0.29
ethA 4328337 c.-864C>T upstream_gene_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0