TB-Profiler result

Run: ERR4822206

Summary

Run ID: ERR4822206

Sample name:

Date: 01-04-2023 17:41:50

Number of reads: 1200317

Percentage reads mapped: 99.67

Strain: lineage4.8

Drug-resistance: HR-TB


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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
katG 2155289 p.Thr275Pro missense_variant 0.44 isoniazid
ahpC 2726145 c.-48G>A upstream_gene_variant 0.61 isoniazid
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 8963 c.1662C>A synonymous_variant 0.12
ccsA 619787 c.-103delG upstream_gene_variant 0.12
rpoC 767188 c.3821_3822dupCC frameshift_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304001 c.1071C>A synonymous_variant 0.12
atpE 1460907 c.-138T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474766 n.1109A>G non_coding_transcript_exon_variant 0.11
rrl 1475299 n.1642G>T non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155355 p.Arg253Trp missense_variant 0.13
katG 2155820 p.Tyr98Asp missense_variant 0.65
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169010 p.Pro535Ser missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518623 p.Ala170Asp missense_variant 0.14
folC 2746962 p.Ala213Ser missense_variant 0.15
thyX 3067296 p.Arg217His missense_variant 0.14
thyX 3067484 c.462C>T synonymous_variant 0.12
ald 3087072 c.253C>T synonymous_variant 0.11
fbiD 3339335 p.Ala73Asp missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
fbiA 3641245 p.Glu235Lys missense_variant 0.13
fbiA 3641336 p.Val265Ala missense_variant 0.1
clpC1 4039729 p.Asp326Asn missense_variant 1.0
clpC1 4040093 c.612C>T synonymous_variant 1.0
embA 4242568 c.-665C>A upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242792 p.Ala977Val missense_variant 0.12
embA 4243725 p.Glu165* stop_gained 0.11
embA 4246491 p.Pro1087Ser missense_variant 1.0
embB 4247212 c.699G>C synonymous_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0