TB-Profiler result

Run: SRR6789636
Summary

Run ID: SRR6789636

Sample name:

Date: 04-04-2023 16:04:41

Number of reads: 1106820

Percentage reads mapped: 98.67

Strain: lineage4.9.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
lineage4.9.1 Euro-American (H37Rv-like) T1 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 8978 c.1677C>T synonymous_variant 1.0
fgd1 490972 p.Arg64Gly missense_variant 0.11
fgd1 491357 p.Phe192Ser missense_variant 0.1
mshA 575280 c.-68G>C upstream_gene_variant 0.13
mshA 575348 c.1A>G start_lost 0.12
ccsA 619830 c.-60delT upstream_gene_variant 0.15
ccsA 619941 c.51G>T synonymous_variant 0.18
rpoB 761947 p.Leu714Pro missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775779 p.Thr901Ile missense_variant 0.11
mmpL5 777253 p.Gly410Cys missense_variant 0.17
mmpL5 777607 p.Gly292Cys missense_variant 0.12
mmpL5 777667 p.Ala272Ser missense_variant 0.12
mmpR5 779019 p.Met10Ile missense_variant 0.11
mmpR5 779024 p.Ala12Val missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
rpsA 1834013 p.Val158Leu missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169041 c.1572G>A synonymous_variant 0.38
PPE35 2169044 c.1569G>C synonymous_variant 0.47
PPE35 2169047 p.Ile522Val missense_variant 0.31
PPE35 2169053 c.1560T>C synonymous_variant 0.92
PPE35 2169056 c.1557A>G synonymous_variant 0.38
PPE35 2169059 c.1554G>A synonymous_variant 0.54
PPE35 2169063 p.Met517Thr missense_variant 0.92
PPE35 2169065 p.Ala516Ile missense_variant 0.54
PPE35 2169068 c.1545G>T synonymous_variant 0.54
PPE35 2169071 c.1542A>G synonymous_variant 0.31
PPE35 2170048 p.Leu189Val missense_variant 0.17
PPE35 2170053 p.Thr187Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
kasA 2518706 p.Val198Phe missense_variant 0.14
kasA 2519210 p.Val366Phe missense_variant 0.12
kasA 2519218 c.1104G>T synonymous_variant 0.11
ribD 2986808 c.-31G>T upstream_gene_variant 0.12
fbiD 3339198 c.81C>G synonymous_variant 0.22
fbiD 3339329 p.Ala71Glu missense_variant 0.11
fbiD 3339385 p.Asp90Asn missense_variant 1.0
fprA 3475311 p.Glu435Asp missense_variant 0.12
Rv3236c 3612117 p.Gly334Trp missense_variant 0.11
fbiB 3642252 c.718C>T synonymous_variant 0.13
fbiB 3642646 p.Thr371Ile missense_variant 0.11
clpC1 4038988 p.Asp573His missense_variant 0.11
embC 4242585 p.Ala908Gly missense_variant 0.2
embA 4243605 p.Val125Leu missense_variant 0.12
aftB 4267892 c.945C>T synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0