TB-Profiler result

Run: SRR6982242

Summary

Run ID: SRR6982242

Sample name:

Date: 04-04-2023 18:31:32

Number of reads: 319339

Percentage reads mapped: 99.66

Strain: lineage4.4.1.1

Drug-resistance: HR-TB


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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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
kasA 2518310 p.Asp66Asn missense_variant 0.2 isoniazid
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761243 c.1437G>A synonymous_variant 0.22
rpoB 762043 p.Ile746Asn missense_variant 0.1
rpoC 764033 p.Ile222Phe missense_variant 0.11
rpoC 764323 c.954G>T synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776415 p.Phe689Tyr missense_variant 0.11
mmpL5 776554 p.Gln643Lys missense_variant 0.11
mmpS5 778775 p.Phe44Ser missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302833 c.-98G>T upstream_gene_variant 0.11
fbiC 1303495 p.Pro189Ser missense_variant 0.11
fbiC 1304023 p.Val365Ile missense_variant 0.11
embR 1416201 p.Gly383Trp missense_variant 0.11
embR 1416355 c.993C>G synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673705 p.Ala89Val missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2155931 p.Ala61Pro missense_variant 0.17
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170150 p.His155Asn missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747015 p.Thr195Ile missense_variant 0.18
Rv2752c 3065988 c.204A>G synonymous_variant 0.13
Rv2752c 3067053 c.-862C>T upstream_gene_variant 0.12
thyX 3067314 c.626_631delGGCGAC disruptive_inframe_deletion 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087106 c.290delT frameshift_variant 0.11
fbiD 3339007 c.-111C>T upstream_gene_variant 0.12
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3448891 p.Thr130Ala missense_variant 0.12
Rv3083 3448960 p.Phe153Leu missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612521 p.Ser199Leu missense_variant 0.15
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269713 p.Gly41Arg missense_variant 0.12
aftB 4269792 c.-956C>T upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0