TB-Profiler result

Run: ERR9285885
Summary

Run ID: ERR9285885

Sample name:

Date: 02-04-2023 11:43:39

Number of reads: 791909

Percentage reads mapped: 99.67

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 0.99
lineage4.4.1 Euro-American (S-type) 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
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 491190 c.408G>A synonymous_variant 0.14
mshA 575543 p.Gly66Ser missense_variant 0.11
mshA 576089 c.750_769delTGATCGGCGCGCGGCCCGGG frameshift_variant 0.15
rpoB 761174 c.1368T>C synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304346 p.Asp472Glu missense_variant 0.1
Rv1258c 1407429 c.-89G>T upstream_gene_variant 0.1
embR 1416232 c.1116T>C synonymous_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473085 n.1240A>G non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918712 p.Asp258Gly missense_variant 0.11
ndh 2101831 c.1212G>T synonymous_variant 0.12
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167865 c.2748G>C synonymous_variant 0.11
PPE35 2167868 c.2745A>C synonymous_variant 0.1
PPE35 2167965 p.Ala883Gly missense_variant 0.11
PPE35 2167967 c.2646A>C synonymous_variant 0.11
PPE35 2168421 p.Val731Asp missense_variant 0.11
PPE35 2169071 c.1542A>T synonymous_variant 0.29
PPE35 2169125 p.Val496Ile missense_variant 0.25
PPE35 2169269 c.1344A>G synonymous_variant 0.19
PPE35 2169272 c.1341C>G synonymous_variant 0.17
PPE35 2169278 c.1335T>C synonymous_variant 0.17
PPE35 2169281 c.1332T>G synonymous_variant 0.16
PPE35 2169623 c.990T>C synonymous_variant 0.17
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170147 p.Ser156Ala missense_variant 0.23
PPE35 2170157 p.Ala152Ser missense_variant 0.17
Rv1979c 2221754 p.Ile471Val missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714838 p.Leu165Phe missense_variant 0.17
folC 2746510 c.1089A>T synonymous_variant 0.11
folC 2746923 p.Gly226Ser missense_variant 1.0
folC 2747545 c.54G>A synonymous_variant 0.12
ribD 2987355 p.Val173Phe missense_variant 0.11
thyA 3073719 c.753C>T synonymous_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449869 p.Ser456Pro missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612088 c.1029G>A synonymous_variant 0.11
Rv3236c 3612547 c.570C>T synonymous_variant 0.14
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3641994 p.Arg154Ser missense_variant 0.12
rpoA 3878496 c.12A>G synonymous_variant 0.11
clpC1 4038773 p.Asp644Glu missense_variant 0.17
clpC1 4038776 p.Glu643Asp missense_variant 0.17
clpC1 4040838 c.-134C>T upstream_gene_variant 0.11
embC 4241577 p.Thr572Met missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243692 p.Gly154Ser missense_variant 1.0
embA 4244117 c.885G>C synonymous_variant 0.1
embA 4244119 p.Tyr296Trp missense_variant 0.1
embB 4246904 p.Val131Met missense_variant 1.0
ethA 4328252 c.-779T>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0