TB-Profiler result

Run: ERR2229712
Summary

Run ID: ERR2229712

Sample name:

Date: 31-03-2023 17:28:10

Number of reads: 376923

Percentage reads mapped: 99.15

Strain: lineage4.8

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
lineage4.8 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
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 5957 c.720delC frameshift_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 575903 p.Ala186Ser missense_variant 0.29
mshA 576578 p.Gly411Arg missense_variant 0.29
rpoB 760282 p.Thr159Met missense_variant 0.13
rpoC 764904 p.Phe512Tyr missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778798 c.-318C>A upstream_gene_variant 0.22
mmpL5 778973 c.-493T>A upstream_gene_variant 0.4
mmpL5 779064 c.-584G>A upstream_gene_variant 0.33
mmpR5 779126 p.Cys46Tyr missense_variant 0.4
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406833 p.Gly170Ser missense_variant 0.14
embR 1417382 c.-35G>A upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.5
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.5
rrl 1476519 n.2862C>T non_coding_transcript_exon_variant 0.5
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.5
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.5
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.5
rrl 1476530 n.2873C>A non_coding_transcript_exon_variant 0.5
rrl 1476534 n.2877A>T non_coding_transcript_exon_variant 0.5
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.5
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.5
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.5
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.5
fabG1 1673908 p.Lys157Glu missense_variant 0.33
rpsA 1833375 c.-167A>T upstream_gene_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103055 c.-13G>T upstream_gene_variant 0.17
PPE35 2168262 p.Phe784Ser missense_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169457 p.His386Asp missense_variant 0.13
PPE35 2169725 c.888T>C synonymous_variant 0.2
PPE35 2169902 p.Leu237Phe missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.45
PPE35 2170053 p.Thr187Ser missense_variant 0.46
PPE35 2170147 p.Ser156Ala missense_variant 0.12
PPE35 2170348 p.Gln89* stop_gained 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747352 p.Asp83Asn missense_variant 0.17
Rv2752c 3065682 c.510C>T synonymous_variant 0.25
thyA 3073814 p.Leu220Ile missense_variant 0.15
fprA 3473884 c.-123A>G upstream_gene_variant 0.2
fprA 3474023 p.Ile6Thr missense_variant 0.29
fbiB 3640551 c.-984C>A upstream_gene_variant 0.29
fbiA 3640880 p.Leu113Arg missense_variant 0.3
fbiA 3640888 c.349delC frameshift_variant 0.27
alr 3841546 c.-126C>A upstream_gene_variant 0.17
ddn 3986993 c.150C>T synonymous_variant 0.29
clpC1 4040831 c.-128delG upstream_gene_variant 0.17
embC 4240385 p.Pro175Thr missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267814 c.1023G>T synonymous_variant 0.2
ethA 4326716 p.Cys253Phe missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338665 c.-144C>T upstream_gene_variant 0.18
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0