TB-Profiler result

Run: ERR233363
Summary

Run ID: ERR233363

Sample name:

Date: 18-08-2022 12:35:20

Number of reads: 8844950

Percentage reads mapped: 87.32

Strain: lineage1.1.1

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
lineage1 Indo-Oceanic EAI RD239 0.98
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 1.0
lineage1.1.1 Indo-Oceanic EAI4;EAI5 RD239 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
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7493 c.192C>T synonymous_variant 0.21
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7799 c.498A>C synonymous_variant 0.14
gyrA 8445 p.Arg382Gly missense_variant 0.18
gyrA 8452 p.Ala384Val missense_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
rpoC 762836 c.-534C>G upstream_gene_variant 0.29
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 764725 p.Phe452Leu missense_variant 0.21
rpoC 764751 p.Val461Gly missense_variant 0.24
rpoC 765171 p.Pro601Leu missense_variant 1.0
rpoC 767305 p.Tyr1312* stop_gained 0.19
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416222 p.Phe376Leu missense_variant 0.12
embR 1416232 p.Cys372Gly missense_variant 0.12
embR 1417019 p.Cys110Tyr missense_variant 1.0
embR 1417136 p.Ser71Ile missense_variant 0.26
atpE 1461019 c.-26C>A upstream_gene_variant 0.13
atpE 1461227 c.183G>A synonymous_variant 1.0
rrs 1471658 n.-188T>G upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.13
rrl 1474709 n.1052G>T non_coding_transcript_exon_variant 1.0
rrl 1476408 n.2751G>C non_coding_transcript_exon_variant 0.13
fabG1 1673449 p.Thr4Pro missense_variant 0.26
inhA 1674892 p.Asn231Asp missense_variant 0.18
rpsA 1834319 p.Val260Ile missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.24
katG 2154724 p.Arg463Leu missense_variant 1.0
pncA 2290023 c.-782A>C upstream_gene_variant 0.34
kasA 2518132 c.18C>T synonymous_variant 1.0
ahpC 2725954 c.-239C>T upstream_gene_variant 0.17
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ahpC 2726070 c.-123G>A upstream_gene_variant 1.0
ahpC 2726737 p.Asp182Ala missense_variant 0.17
ahpC 2726756 c.564C>G synonymous_variant 0.25
folC 2746186 c.1413G>C synonymous_variant 0.2
folC 2747218 p.Ile127Met missense_variant 0.13
ribD 2987392 p.Arg185Pro missense_variant 0.16
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiA 3641411 p.Val290Gly missense_variant 0.28
fbiB 3641955 p.Gly141Arg missense_variant 0.23
alr 3840268 p.Thr385Pro missense_variant 0.17
embC 4239870 p.Thr3Asn missense_variant 0.29
embC 4239884 p.Pro8Thr missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embC 4241056 c.1194C>G synonymous_variant 0.28
embC 4241456 p.Ala532Pro missense_variant 0.28
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.23
embA 4243848 p.Val206Met missense_variant 1.0
embA 4243977 p.Ala249Pro missense_variant 0.29
embA 4244096 c.864C>T synonymous_variant 1.0
embA 4244375 c.1143C>G synonymous_variant 0.26
embA 4245969 p.Pro913Ser missense_variant 1.0
embA 4246423 p.Val1064Gly missense_variant 0.18
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248725 p.Ser738Ala missense_variant 0.14
ubiA 4269387 p.Glu149Asp missense_variant 1.0
ubiA 4269606 c.228T>C synonymous_variant 1.0
ethA 4327483 c.-10G>A upstream_gene_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.15
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0
gid 4408034 p.Glu57* stop_gained 1.0
gid 4408035 c.168T>C synonymous_variant 1.0
gid 4408329 c.-127C>G upstream_gene_variant 0.19