TB-Profiler result

Run: SRR13837519
Summary

Run ID: SRR13837519

Sample name:

Date: 03-04-2023 09:12:18

Number of reads: 597037

Percentage reads mapped: 96.53

Strain: lineage4.9

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
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 6325 c.-977C>G upstream_gene_variant 0.17
gyrB 6406 p.Asn389Lys missense_variant 1.0
gyrB 6797 p.Gly520Ser missense_variant 0.11
gyrA 6824 c.-478C>T upstream_gene_variant 0.12
gyrA 6841 c.-461T>C upstream_gene_variant 0.12
gyrA 6844 c.-458T>G upstream_gene_variant 0.13
gyrA 6856 c.-446T>C upstream_gene_variant 0.12
mshA 575880 p.His178Pro missense_variant 1.0
mshA 576356 p.Ala337Ser missense_variant 1.0
rpoC 763486 c.117T>C synonymous_variant 0.12
rpoC 763570 c.201G>C synonymous_variant 0.12
rpoC 763594 c.225C>T synonymous_variant 0.16
rpoC 767062 c.3693C>A synonymous_variant 0.12
rpoC 767098 c.3729T>C synonymous_variant 0.18
rpoC 767119 c.3750A>G synonymous_variant 0.15
rpoC 767134 c.3765C>G synonymous_variant 0.12
mmpL5 775966 p.Ala839Ser missense_variant 0.14
mmpL5 775981 p.Leu834Met missense_variant 0.12
fbiC 1303509 c.579G>C synonymous_variant 0.12
fbiC 1303512 c.582T>C synonymous_variant 0.12
fbiC 1303517 p.Met196Arg missense_variant 0.88
fbiC 1303534 p.Ser202Ala missense_variant 0.12
fbiC 1303545 c.615A>G synonymous_variant 0.12
fbiC 1303560 c.630G>C synonymous_variant 0.12
fbiC 1303575 c.645G>C synonymous_variant 0.12
fbiC 1303590 c.660A>G synonymous_variant 0.12
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.12
rrl 1473558 n.-100T>G upstream_gene_variant 1.0
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.2
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.15
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.14
rrl 1476689 n.3032A>T non_coding_transcript_exon_variant 0.13
rrl 1476690 n.3033C>T non_coding_transcript_exon_variant 0.13
rrl 1476695 n.3038T>A non_coding_transcript_exon_variant 0.13
fabG1 1673792 p.Arg118Leu missense_variant 1.0
rpsA 1833709 c.168C>T synonymous_variant 0.91
rpsA 1834448 p.Lys303* stop_gained 0.94
tlyA 1918103 p.Val55Ala missense_variant 1.0
tlyA 1918250 p.Gly104Ala missense_variant 1.0
ndh 2102635 c.408C>G synonymous_variant 0.15
ndh 2102638 c.405A>G synonymous_variant 0.15
ndh 2102644 c.399A>G synonymous_variant 0.14
katG 2156538 c.-427A>T upstream_gene_variant 1.0
Rv1979c 2222544 c.621G>A synonymous_variant 1.0
eis 2715078 c.255C>G synonymous_variant 1.0
folC 2747750 c.-152G>C upstream_gene_variant 1.0
ald 3086982 p.Ala55Pro missense_variant 1.0
Rv3083 3449935 p.Ile478Val missense_variant 1.0
fbiB 3642147 p.Val205Phe missense_variant 1.0
fbiB 3642189 p.Gly219Trp missense_variant 1.0
rpoA 3878284 p.Glu75Ala missense_variant 0.12
rpoA 3878292 c.216T>C synonymous_variant 0.12
clpC1 4039120 p.Ser529Ala missense_variant 0.86
clpC1 4039121 c.1584T>C synonymous_variant 0.14
clpC1 4039124 c.1581C>G synonymous_variant 0.14
clpC1 4039208 c.1497C>G synonymous_variant 0.15
clpC1 4039226 c.1479T>C synonymous_variant 0.18
clpC1 4039306 p.Gln467Lys missense_variant 0.95
clpC1 4039400 c.1304delA frameshift_variant 1.0
clpC1 4039466 c.1239T>C synonymous_variant 0.17
ethA 4327034 p.Tyr147Phe missense_variant 1.0
gid 4408038 p.Ile55Met missense_variant 1.0