TB-Profiler result

Run: ERR9786245
Summary

Run ID: ERR9786245

Sample name:

Date: 02-04-2023 12:14:41

Number of reads: 1986503

Percentage reads mapped: 99.78

Strain: lineage4.6.2.2;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 0.47
lineage4.6 Euro-American T;LAM None 0.52
lineage4.6.2 Euro-American T;LAM RD726 0.56
lineage4.3.4 Euro-American (LAM) LAM RD174 0.45
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.53
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.49
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 6817 c.-485G>A upstream_gene_variant 0.41
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 0.54
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.39
embR 1417258 c.90G>A synonymous_variant 0.42
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155389 c.723C>G synonymous_variant 0.46
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067474 p.Pro158Ala missense_variant 0.48
thyA 3073868 p.Thr202Ala missense_variant 0.54
ald 3086788 c.-32T>C upstream_gene_variant 0.41
Rv3083 3448567 p.His22Asp missense_variant 0.58
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.44
Rv3236c 3612571 c.546C>T synonymous_variant 0.55
clpC1 4038287 c.2418C>T synonymous_variant 0.48
embC 4239763 c.-100C>T upstream_gene_variant 0.49
embA 4242550 c.-683C>G upstream_gene_variant 0.57
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245745 p.Pro838Leu missense_variant 0.46
aftB 4267272 p.Lys522Arg missense_variant 0.58
ethR 4326739 c.-810G>C upstream_gene_variant 0.53
ethA 4328004 c.-531C>T upstream_gene_variant 0.58
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.45
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0