TB-Profiler result

Run: ERR046777
Summary

Run ID: ERR046777

Sample name:

Date: 31-03-2023 08:50:44

Number of reads: 7508903

Percentage reads mapped: 99.28

Strain: lineage4.8.1

Drug-resistance: HR-TB

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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
lineage4.8.1 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
katG 2155168 p.Ser315Asn missense_variant 0.19 isoniazid
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
rpoB 759620 c.-187A>C upstream_gene_variant 0.35
rpoC 762836 c.-534C>G upstream_gene_variant 0.3
rpoC 764725 p.Phe452Leu missense_variant 0.23
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.21
inhA 1674892 p.Asn231Asp missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.33
PPE35 2170156 p.Ala153Pro missense_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.25
ahpC 2725954 c.-239C>T upstream_gene_variant 0.28
folC 2746186 c.1413G>C synonymous_variant 0.17
Rv2752c 3064552 p.Arg547Pro missense_variant 0.18
Rv2752c 3064741 p.Gly484Ala missense_variant 0.24
thyA 3073806 c.666C>G synonymous_variant 0.16
thyA 3074654 c.-183T>G upstream_gene_variant 0.26
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.29
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiB 3642874 p.Leu447Arg missense_variant 1.0
rpoA 3878238 p.Asp90Glu missense_variant 0.15
rpoA 3878641 c.-135delG upstream_gene_variant 0.16
ddn 3987013 p.Gly57Ala missense_variant 0.2
clpC1 4038857 c.1848C>A synonymous_variant 0.15
clpC1 4039932 p.Gly258Val missense_variant 0.2
embC 4241056 c.1194C>G synonymous_variant 0.22
embC 4241456 p.Ala532Pro missense_variant 0.47
embC 4242476 p.Pro872Ala missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.34
embC 4242827 p.Leu989Val missense_variant 0.18
embA 4244375 c.1143C>G synonymous_variant 0.2
ubiA 4269529 p.Ala102Gly missense_variant 0.17
ethA 4327672 c.-199G>A upstream_gene_variant 0.31
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407788 p.Val139Leu missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0