TB-Profiler result

Run: ERR4820747
Summary

Run ID: ERR4820747

Sample name:

Date: 01-04-2023 16:51:19

Number of reads: 786406

Percentage reads mapped: 98.7

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 0.99
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.99
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491390 p.Tyr203Ser missense_variant 0.18
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 575689 c.342G>A synonymous_variant 0.14
mshA 575890 c.543C>T synonymous_variant 0.13
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761152 p.Leu449Gln missense_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765651 p.Gln761Pro missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777465 p.Leu339Trp missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801008 p.Thr67Lys missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473178 n.1333T>G non_coding_transcript_exon_variant 0.38
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154536 p.Glu526Lys missense_variant 0.13
katG 2155416 c.696G>A synonymous_variant 0.13
PPE35 2169988 p.Leu209Val missense_variant 0.22
PPE35 2170220 c.393C>T synonymous_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2747168 p.Lys144Thr missense_variant 0.15
folC 2747747 c.-149C>A upstream_gene_variant 0.25
folC 2747780 c.-182C>A upstream_gene_variant 0.22
Rv2752c 3065936 p.His86Tyr missense_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087583 p.Val255Ala missense_variant 1.0
ald 3087892 p.Asp358Gly missense_variant 0.15
Rv3083 3449267 p.Tyr255Ser missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474054 c.48C>T synonymous_variant 0.25
panD 4044404 c.-123G>T upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245881 p.Asp883Glu missense_variant 0.13
embB 4248051 p.Gly513Glu missense_variant 0.13
embB 4248454 p.Trp647Cys missense_variant 0.12
embB 4248653 p.Met714Val missense_variant 0.29
embB 4249029 p.Pro839His missense_variant 0.16
whiB6 4338595 c.-75delG upstream_gene_variant 1.0