TB-Profiler result

Run: ERR9786944
Summary

Run ID: ERR9786944

Sample name:

Date: 02-04-2023 12:52:27

Number of reads: 568499

Percentage reads mapped: 99.69

Strain: lineage4.3.4.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 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 6999 p.Arg587His missense_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576620 p.Ala425Thr missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460868 c.-177A>G upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474948 n.1291C>A non_coding_transcript_exon_variant 0.1
rrl 1475876 n.2219A>G non_coding_transcript_exon_variant 0.1
inhA 1673394 c.-808A>G upstream_gene_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154245 p.Glu623Lys missense_variant 0.11
Rv1979c 2222854 p.Ile104Thr missense_variant 1.0
Rv1979c 2223144 c.20delG frameshift_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518324 p.Ser70Arg missense_variant 0.14
folC 2746451 p.Gly383Asp missense_variant 0.12
ribD 2987468 c.630G>A synonymous_variant 0.11
Rv2752c 3064822 p.Val457Ala missense_variant 0.12
Rv2752c 3064825 p.Asp456Val missense_variant 0.12
Rv2752c 3064828 p.Gly455Asp missense_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086687 c.-133G>A upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448371 c.-133A>G upstream_gene_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568607 p.Pro25Ser missense_variant 0.11
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3841521 c.-101G>C upstream_gene_variant 0.1
clpC1 4038183 p.Gly841Ala missense_variant 0.4
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039991 c.714G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244560 p.Ile443Thr missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0