TB-Profiler result

Run: ERR1200628
Summary

Run ID: ERR1200628

Sample name:

Date: 18-08-2022 14:51:22

Number of reads: 7372150

Percentage reads mapped: 82.91

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 0.99
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 7493 c.192C>T synonymous_variant 0.15
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7799 c.498A>C synonymous_variant 0.18
gyrA 8377 p.Asp359Gly missense_variant 0.21
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.27
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.17
rpoB 759831 p.Thr9Pro missense_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761285 c.1479G>C synonymous_variant 0.21
rpoC 762836 c.-534C>G upstream_gene_variant 0.2
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417233 c.115C>T synonymous_variant 0.2
atpE 1461019 c.-26C>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.23
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.19
rrl 1476408 n.2751G>C non_coding_transcript_exon_variant 0.13
fabG1 1673449 p.Thr4Pro missense_variant 0.25
inhA 1674892 p.Asn231Asp missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518891 c.777C>A synonymous_variant 0.15
eis 2714366 p.Val323Leu missense_variant 0.15
ahpC 2726737 p.Asp182Ala missense_variant 0.26
folC 2746186 c.1413G>C synonymous_variant 0.17
folC 2747218 p.Ile127Met missense_variant 0.17
ribD 2987392 p.Arg185Pro missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.24
ddn 3987013 p.Gly57Ala missense_variant 0.14
embC 4241056 c.1194C>G synonymous_variant 0.26
embC 4241456 p.Ala532Pro missense_variant 0.25
embC 4241783 p.Trp641Gly missense_variant 0.26
embC 4242476 p.Pro872Ala missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243977 p.Ala249Pro missense_variant 0.3
embB 4248725 p.Ser738Ala missense_variant 0.18
ethA 4327672 c.-199G>A upstream_gene_variant 0.18