TB-Profiler result

Run: SRR6789618
Summary

Run ID: SRR6789618

Sample name:

Date: 04-04-2023 16:03:45

Number of reads: 723714

Percentage reads mapped: 98.89

Strain: lineage4.9.1

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
lineage4.9 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
mshA 576307 c.960C>T synonymous_variant 0.14
mshA 576527 p.Glu394* stop_gained 0.14
ccsA 619848 c.-43C>T upstream_gene_variant 0.11
ccsA 620176 p.Val96Leu missense_variant 0.12
rpoB 760133 c.327C>G synonymous_variant 0.18
rpoB 763196 p.Glu1130Asp missense_variant 0.13
rpoB 763231 p.Arg1142His missense_variant 0.12
rpoC 765558 p.Thr730Met missense_variant 0.1
rpoC 766038 p.Asp890Val missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407142 p.Asp67Asn missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.16
fabG1 1673756 p.Glu106Gly missense_variant 0.13
rpsA 1834816 p.His425Gln missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918062 p.Lys41Asn missense_variant 0.1
ndh 2101744 p.Asp433Glu missense_variant 0.12
PPE35 2169041 c.1572G>A synonymous_variant 0.67
PPE35 2169044 c.1569G>C synonymous_variant 0.33
PPE35 2169047 p.Ile522Val missense_variant 0.2
PPE35 2169053 c.1560T>C synonymous_variant 1.0
PPE35 2169056 c.1557A>G synonymous_variant 0.2
PPE35 2169059 c.1554G>A synonymous_variant 0.8
PPE35 2169063 p.Met517Thr missense_variant 1.0
PPE35 2169065 p.Ala516Ile missense_variant 0.8
PPE35 2169068 c.1545G>T synonymous_variant 0.8
PPE35 2169071 c.1542A>G synonymous_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.35
PPE35 2170053 p.Thr187Ser missense_variant 0.34
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
pncA 2289468 c.-227G>C upstream_gene_variant 0.14
kasA 2518041 c.-74T>A upstream_gene_variant 0.11
kasA 2518721 c.608delA frameshift_variant 0.12
ribD 2987140 p.Val101Asp missense_variant 0.14
Rv2752c 3064798 p.Arg465Leu missense_variant 0.13
thyX 3067408 p.Glu180Gln missense_variant 0.17
thyX 3067703 p.Tyr81* stop_gained 0.12
fbiD 3339385 p.Asp90Asn missense_variant 1.0
whiB7 3568525 p.Cys52Phe missense_variant 0.12
whiB7 3568645 p.Arg12Lys missense_variant 0.13
Rv3236c 3612157 p.Arg320Gln missense_variant 0.12
fbiA 3640381 c.-162T>C upstream_gene_variant 0.11
fbiB 3642395 c.861A>T synonymous_variant 0.12
embA 4244262 p.Leu344Met missense_variant 0.15
embA 4245886 p.Asp885Val missense_variant 0.12
ethA 4326063 p.Gly471Cys missense_variant 0.15
ethA 4326067 c.1407G>T synonymous_variant 0.15
ethA 4326109 p.Trp455Cys missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0