TB-Profiler result

Run: ERR9285908
Summary

Run ID: ERR9285908

Sample name:

Date: 02-04-2023 11:44:35

Number of reads: 707443

Percentage reads mapped: 98.45

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 0.99
lineage4.4.1.1 Euro-American S;Orphans 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759670 c.-136delG upstream_gene_variant 0.11
rpoB 761558 c.1752C>G synonymous_variant 0.1
rpoB 761570 c.1764T>C synonymous_variant 0.12
rpoB 761579 c.1773G>C synonymous_variant 0.13
rpoB 761600 c.1794T>G synonymous_variant 0.11
rpoB 761606 c.1800C>G synonymous_variant 0.11
rpoB 761612 c.1806G>C synonymous_variant 0.11
rpoB 761615 c.1809A>C synonymous_variant 0.11
rpoB 763010 p.Trp1068* stop_gained 0.14
rpoC 764858 c.1489T>C synonymous_variant 0.12
rpoC 765655 c.2286T>A synonymous_variant 0.15
rpoC 765661 c.2292T>G synonymous_variant 0.12
rpoC 765700 c.2331T>C synonymous_variant 0.12
rpoC 765734 c.2365T>C synonymous_variant 0.11
rpoC 765739 c.2370G>C synonymous_variant 0.12
rpoC 765753 p.Asp795Ala missense_variant 0.11
rpoC 765772 c.2403C>G synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777626 c.855C>T synonymous_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303761 c.831T>C synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472520 n.675T>A non_coding_transcript_exon_variant 0.17
rrs 1473314 n.1469A>T non_coding_transcript_exon_variant 0.11
rrl 1473451 n.-207G>A upstream_gene_variant 0.18
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.17
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.17
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.18
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.17
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.17
rrl 1474054 n.397T>C non_coding_transcript_exon_variant 0.18
rrl 1474056 n.399T>C non_coding_transcript_exon_variant 0.18
rrl 1474093 n.436G>T non_coding_transcript_exon_variant 0.15
rrl 1474099 n.442G>A non_coding_transcript_exon_variant 0.23
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.15
inhA 1674349 p.Ile50Leu missense_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169586 p.Asn343Asp missense_variant 0.18
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726739 p.Pro183Ser missense_variant 0.12
folC 2746923 p.Gly226Ser missense_variant 1.0
pepQ 2860600 c.-182A>C upstream_gene_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.17
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
Rv3236c 3612795 p.Gly108Ser missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243692 p.Gly154Ser missense_variant 1.0
embA 4245009 p.Ala593Thr missense_variant 0.13
embB 4246904 p.Val131Met missense_variant 1.0
aftB 4267042 p.Arg599Ser missense_variant 0.12
aftB 4267895 p.Phe314Leu missense_variant 0.2
ethA 4328252 c.-779T>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0