TB-Profiler result

Run: SRR6896561
Summary

Run ID: SRR6896561

Sample name:

Date: 04-04-2023 18:09:56

Number of reads: 637789

Percentage reads mapped: 99.75

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 1.0
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 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777384 p.Lys366Arg missense_variant 0.11
mmpL5 777416 c.1065G>T synonymous_variant 1.0
mmpS5 778890 p.Lys6Glu missense_variant 0.1
mmpL5 778926 c.-446A>G upstream_gene_variant 0.11
rpsL 781388 c.-171delT upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303763 p.Arg278Leu missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673766 c.-436C>T upstream_gene_variant 0.12
fabG1 1674085 p.Glu216* stop_gained 0.11
tlyA 1917753 c.-187G>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2155713 p.Asn133Lys missense_variant 0.13
PPE35 2168479 p.Thr712Pro missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170198 p.Ala139Thr missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290226 c.-985T>C upstream_gene_variant 1.0
kasA 2518598 p.Ala162Thr missense_variant 0.12
eis 2715050 p.Gly95Arg missense_variant 0.12
eis 2715548 c.-216G>T upstream_gene_variant 0.12
folC 2747084 p.Val172Glu missense_variant 0.11
pepQ 2860574 c.-156C>G upstream_gene_variant 0.12
ribD 2987175 p.Glu113Gln missense_variant 0.11
Rv2752c 3065903 p.Arg97* stop_gained 0.12
thyX 3067299 c.646dupC frameshift_variant 0.11
thyA 3074420 p.Lys18* stop_gained 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449458 p.Asp319Tyr missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474031 p.Val9Leu missense_variant 0.11
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3642303 p.Gln257Lys missense_variant 0.12
embC 4241637 p.Val592Ala missense_variant 0.13
embC 4241784 p.Trp641Ser missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243000 c.-233C>T upstream_gene_variant 0.12
embA 4243370 c.138G>T synonymous_variant 0.12
embA 4244429 c.1197G>A synonymous_variant 0.15
embA 4245192 p.Ser654Thr missense_variant 0.12
embB 4249797 p.Arg1095Pro missense_variant 0.13
aftB 4268633 p.Tyr68* stop_gained 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0