TB-Profiler result

Run: SRR13837703
Summary

Run ID: SRR13837703

Sample name:

Date: 03-04-2023 09:16:15

Number of reads: 296576

Percentage reads mapped: 97.91

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
gyrB 6027 p.His263Arg missense_variant 1.0
fgd1 490794 c.12G>C synonymous_variant 0.2
fgd1 490797 c.15G>A synonymous_variant 0.22
fgd1 490800 c.18A>C synonymous_variant 0.25
fgd1 490803 c.21T>A synonymous_variant 0.25
fgd1 490812 c.30A>G synonymous_variant 0.25
fgd1 490815 c.33G>C synonymous_variant 0.22
fgd1 490827 c.45C>T synonymous_variant 0.22
fgd1 490833 c.51G>A synonymous_variant 0.2
fgd1 490842 c.60C>G synonymous_variant 0.2
fgd1 490851 c.69A>C synonymous_variant 0.2
fgd1 490887 c.105G>C synonymous_variant 0.18
fgd1 490890 c.108C>T synonymous_variant 0.18
fgd1 490902 c.120T>C synonymous_variant 0.18
fgd1 490905 c.123T>C synonymous_variant 0.18
fgd1 490911 c.129T>G synonymous_variant 0.17
fgd1 490917 c.135C>A synonymous_variant 0.17
fgd1 490921 p.Gln47Glu missense_variant 0.17
fgd1 490932 c.150T>C synonymous_variant 0.15
mshA 576327 p.Phe327Tyr missense_variant 1.0
rpoB 759707 c.-100C>T upstream_gene_variant 1.0
rpoB 760178 c.372G>C synonymous_variant 1.0
rpoB 762284 c.2478G>A synonymous_variant 1.0
rpoC 764262 p.Val298Ala missense_variant 1.0
rpoC 766607 p.Ile1080Leu missense_variant 0.2
rpoC 766630 c.3261G>C synonymous_variant 0.18
rpoC 766645 c.3276A>G synonymous_variant 0.18
rpoC 766651 c.3282T>C synonymous_variant 0.18
rpoC 766657 c.3288A>G synonymous_variant 0.2
rpoC 766672 c.3303T>C synonymous_variant 0.22
rpoC 766726 c.3357T>C synonymous_variant 0.3
rpoC 766738 c.3369G>T synonymous_variant 0.33
rpoC 766750 c.3381C>G synonymous_variant 0.25
rpoC 766765 c.3396A>C synonymous_variant 0.22
rpoC 766774 c.3405T>C synonymous_variant 0.22
rpoC 766801 c.3432C>A synonymous_variant 0.25
rpoC 766804 c.3435A>G synonymous_variant 0.22
rpoC 766843 c.3474T>C synonymous_variant 0.17
mmpL5 777280 p.Ala401Ser missense_variant 1.0
mmpS5 778853 p.Val18Ala missense_variant 1.0
embR 1416662 p.Arg229Pro missense_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.13
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.13
rrl 1474823 n.1166C>T non_coding_transcript_exon_variant 0.13
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.15
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.14
rrl 1476203 n.2546G>C non_coding_transcript_exon_variant 0.25
rrl 1476288 n.2631T>C non_coding_transcript_exon_variant 1.0
katG 2155675 p.Arg146Leu missense_variant 0.71
katG 2155677 c.435C>G synonymous_variant 0.29
katG 2155680 c.432G>C synonymous_variant 0.29
katG 2155691 c.421T>C synonymous_variant 0.5
katG 2155695 p.Ala139Val missense_variant 0.5
katG 2155701 c.411C>T synonymous_variant 0.5
katG 2155704 c.408C>G synonymous_variant 0.5
katG 2155716 c.396T>C synonymous_variant 0.5
katG 2155722 c.390G>C synonymous_variant 0.5
Rv1979c 2222433 c.732A>G synonymous_variant 1.0
folC 2746655 p.Ala315Asp missense_variant 0.18
ald 3086631 c.-189A>G upstream_gene_variant 1.0
Rv3236c 3612954 c.162delC frameshift_variant 1.0
alr 3840284 p.Trp379* stop_gained 1.0
embC 4240042 p.Asn60Lys missense_variant 1.0
embB 4245806 c.-708G>A upstream_gene_variant 1.0
embA 4246264 p.His1011Arg missense_variant 0.2
embB 4246274 c.-240G>C upstream_gene_variant 0.18
embB 4246292 c.-222A>G upstream_gene_variant 0.15
embB 4247075 c.563dupT frameshift_variant 1.0
embB 4247839 c.1326G>A synonymous_variant 1.0
embB 4249763 p.Thr1084Pro missense_variant 1.0
ethA 4326860 p.Leu205Pro missense_variant 1.0