TB-Profiler result

Run: SRR6896185
Summary

Run ID: SRR6896185

Sample name:

Date: 04-04-2023 17:58:08

Number of reads: 444605

Percentage reads mapped: 99.07

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575651 c.306_307delGG frameshift_variant 0.12
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 575825 p.Gln160* stop_gained 0.14
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761977 p.Asn724Ser missense_variant 0.14
rpoC 765150 p.Gly594Glu missense_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
fabG1 1673503 c.66_67delAG frameshift_variant 0.11
fabG1 1673840 p.Arg134Pro missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153900 p.Asp738Asn missense_variant 0.17
katG 2153938 p.Val725Ala missense_variant 0.18
katG 2154149 p.Asn655Asp missense_variant 0.12
PPE35 2170495 p.Ser40Pro missense_variant 0.18
Rv1979c 2222121 c.1044G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288895 c.338_346delGCACGCCAC disruptive_inframe_deletion 0.66
pncA 2289910 c.-669C>T upstream_gene_variant 0.11
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2715306 c.27C>T synonymous_variant 0.1
folC 2746754 p.Leu282His missense_variant 0.11
thyX 3067832 p.Phe38Leu missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087774 p.Pro319Thr missense_variant 0.11
fbiD 3338958 c.-160A>T upstream_gene_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640732 p.Thr64Ala missense_variant 0.1
clpC1 4038287 c.2417delA frameshift_variant 0.11
clpC1 4039900 p.Leu269Ile missense_variant 0.11
embC 4240070 p.Val70Phe missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244870 c.1638C>T synonymous_variant 0.15
embA 4244996 c.1764C>T synonymous_variant 0.14
embA 4245565 p.Gly778Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0