TB-Profiler result

Run: ERR1200603
Summary

Run ID: ERR1200603

Sample name:

Date: 18-08-2022 14:49:48

Number of reads: 5941619

Percentage reads mapped: 83.27

Strain: lineage7

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
lineage7 Lineage 7 None 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 7493 c.192C>T synonymous_variant 0.17
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8445 p.Arg382Gly missense_variant 0.19
gyrA 8876 c.1575C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.39
mshA 575932 p.Glu195Asp missense_variant 0.17
mshA 576184 c.837A>C synonymous_variant 0.23
mshA 576751 p.Lys468Asn missense_variant 0.19
rpoC 762836 c.-534C>G upstream_gene_variant 0.2
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764013 p.Glu215Ala missense_variant 1.0
rpoC 764725 p.Phe452Leu missense_variant 0.18
rpoC 764751 p.Val461Gly missense_variant 0.3
rpoC 764905 p.Phe512Leu missense_variant 0.15
rpoC 766955 p.Glu1196Lys missense_variant 1.0
rpoC 767305 p.Tyr1312* stop_gained 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781488 c.-72G>A upstream_gene_variant 1.0
rplC 800997 p.Asn63Lys missense_variant 0.14
fbiC 1305129 c.2199C>T synonymous_variant 1.0
embR 1416222 p.Phe376Leu missense_variant 0.15
embR 1416232 p.Cys372Gly missense_variant 0.15
embR 1416977 p.His124Arg missense_variant 1.0
embR 1417501 c.-154A>C upstream_gene_variant 0.21
rrs 1471658 n.-188T>G upstream_gene_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.19
rrl 1474959 n.1303_1304insAC non_coding_transcript_exon_variant 1.0
rrl 1476408 n.2751G>C non_coding_transcript_exon_variant 0.18
inhA 1674892 p.Asn231Asp missense_variant 0.18
rpsA 1834916 p.Thr459Pro missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918281 c.342A>C synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
pncA 2290000 c.-759C>A upstream_gene_variant 0.14
pncA 2290023 c.-782A>C upstream_gene_variant 0.31
kasA 2518132 c.18C>T synonymous_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.33
ahpC 2726737 p.Asp182Ala missense_variant 0.15
ahpC 2726756 c.564C>G synonymous_variant 0.24
folC 2746186 c.1413G>C synonymous_variant 0.14
ribD 2987392 p.Arg185Pro missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.22
fbiD 3339550 p.Gly145Trp missense_variant 0.18
fbiA 3641411 p.Val290Gly missense_variant 0.29
fbiB 3641955 p.Gly141Arg missense_variant 0.14
alr 3840268 p.Thr385Pro missense_variant 0.17
ddn 3987013 p.Gly57Ala missense_variant 0.25
embC 4240153 c.291G>A synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241056 c.1194C>G synonymous_variant 0.35
embC 4242476 p.Pro872Ala missense_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.18
embA 4243977 p.Ala249Pro missense_variant 0.2
embA 4244375 c.1143C>G synonymous_variant 0.17
embA 4246423 p.Val1064Gly missense_variant 0.21
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248073 c.1560C>T synonymous_variant 1.0
embB 4248725 p.Ser738Ala missense_variant 0.12
ubiA 4269387 p.Glu149Asp missense_variant 1.0
ubiA 4269606 c.228T>C synonymous_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.21
ethA 4328371 c.-898C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.98