TB-Profiler result

Run: SRR4034518
Summary

Run ID: SRR4034518

Sample name:

Date: 04-04-2023 06:51:29

Number of reads: 194183

Percentage reads mapped: 99.75

Strain: lineage4

Drug-resistance: Other

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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
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
tlyA 1918487 c.549delG frameshift_variant 0.4 capreomycin
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 6122 p.Ala295Ser missense_variant 0.22
gyrA 7929 p.Ala210Thr missense_variant 0.4
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9728 c.2427C>A synonymous_variant 0.4
mshA 576204 p.Ala286Val missense_variant 1.0
rpoC 764715 p.Leu449Pro missense_variant 0.4
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169050 c.1562delA frameshift_variant 0.4
PPE35 2170315 p.Val100Met missense_variant 0.5
Rv1979c 2222317 p.Ala283Val missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289510 c.-270delT upstream_gene_variant 0.67
Rv2752c 3064560 c.1632C>T synonymous_variant 0.4
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
alr 3840443 c.978G>T synonymous_variant 1.0
alr 3841351 p.Ala24Ser missense_variant 0.29
rpoA 3878445 c.63C>T synonymous_variant 0.5
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269554 p.Ala94Thr missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0