TB-Profiler result

Run: ERR4407458
Summary

Run ID: ERR4407458

Sample name:

Date: 01-04-2023 05:44:55

Number of reads: 229652

Percentage reads mapped: 99.53

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 1.0
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 7714 p.Ala138Val missense_variant 0.17
gyrA 9088 p.Val596Ala missense_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.27
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.15
rpoB 759954 p.Val50Ile missense_variant 0.17
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776550 p.Thr644Asn missense_variant 0.14
mmpL5 776966 c.1514delG frameshift_variant 0.17
mmpL5 778807 c.-327T>C upstream_gene_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416200 p.Gly383Glu missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472176 n.331G>A non_coding_transcript_exon_variant 0.11
rrs 1472478 n.633A>T non_coding_transcript_exon_variant 0.17
rrl 1473792 n.135C>T non_coding_transcript_exon_variant 0.2
rpsA 1834543 c.1002C>A synonymous_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102313 p.Gln244Glu missense_variant 0.12
ndh 2102397 p.Ala216Thr missense_variant 0.2
Rv1979c 2222655 c.510G>A synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726081 c.-112C>T upstream_gene_variant 0.12
ribD 2987042 c.204A>G synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087045 p.Glu76Lys missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640546 p.Lys2Glu missense_variant 0.17
fbiB 3642420 c.886C>A synonymous_variant 0.18
rpoA 3877562 p.Asp316Asn missense_variant 0.12
clpC1 4038408 p.Pro766Leu missense_variant 1.0
embC 4241994 c.2134_2135delAC frameshift_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243158 c.-75G>A upstream_gene_variant 0.17
embB 4246819 c.309delC frameshift_variant 0.22
embB 4248712 c.2199C>T synonymous_variant 0.15
ubiA 4269394 p.Val147Gly missense_variant 0.3
ethR 4327852 p.Met102Val missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0