TB-Profiler result

Run: ERR9786883

Summary

Run ID: ERR9786883

Sample name:

Date: 02-04-2023 12:49:32

Number of reads: 748047

Percentage reads mapped: 99.84

Strain: lineage4.3.4.2

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 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.99
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 6140 p.Val301Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9351 p.Ser684Ala missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475743 n.2086T>C non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169632 c.981C>T synonymous_variant 0.11
PPE35 2170066 p.Ala183Thr missense_variant 0.15
Rv1979c 2222453 c.711delG frameshift_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290020 c.-779T>C upstream_gene_variant 1.0
Rv2752c 3065368 p.Gln275Arg missense_variant 0.15
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
fbiB 3641517 c.-18C>T upstream_gene_variant 0.11
clpC1 4038169 c.2531_2535delAGCCG frameshift_variant 0.13
clpC1 4038178 c.2526_2527insT frameshift_variant 0.12
clpC1 4038183 p.Gly841Ala missense_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039315 p.Arg464Cys missense_variant 1.0
embC 4242073 c.2211C>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4327472 c.2T>C start_lost 0.1
ethA 4327746 c.-273T>C upstream_gene_variant 1.0
whiB6 4338460 p.Met21Lys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0