TB-Profiler result

Run: ERR4820778
Summary

Run ID: ERR4820778

Sample name:

Date: 01-04-2023 16:52:33

Number of reads: 4617307

Percentage reads mapped: 99.12

Strain: lineage4.1.2

Drug-resistance: Other

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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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.17 streptomycin
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 5762 p.Ala175Thr missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7762 p.Pro154Leu missense_variant 1.0
gyrA 8019 p.Thr240Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 0.99
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.17
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.17
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.27
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.25
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.18
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.33
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.17
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.25
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.25
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.14
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.17
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.18
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.14
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.14
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.19
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.12
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.12
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.1
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.11
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.19
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.11
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.14
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.1
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.1
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.21
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.2
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.1
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.19
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.11
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.11
rrs 1473291 n.1446G>A non_coding_transcript_exon_variant 0.11
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.11
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 0.25
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.25
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.25
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.25
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.29
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.5
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242768 p.Arg969His missense_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4269315 c.-479C>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0