TB-Profiler result

Run: SRR2101767
Summary

Run ID: SRR2101767

Sample name:

Date: 03-04-2023 23:54:17

Number of reads: 461485

Percentage reads mapped: 95.69

Strain: lineage4.1.2.1

Drug-resistance: HR-TB

Download CSV Download TXT Download PDF Download JSON
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 0.94
lineage4.1.2 Euro-American T;H None 0.91
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.87
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 2155740 c.371delG frameshift_variant 0.1 isoniazid, 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 7580 c.279C>T synonymous_variant 0.91
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 0.88
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 0.93
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.11
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.11
rrs 1472659 n.814G>A non_coding_transcript_exon_variant 0.11
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.11
rrs 1472669 n.824_825insTAG non_coding_transcript_exon_variant 0.11
rrs 1472677 n.832C>G non_coding_transcript_exon_variant 0.12
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 0.12
rrs 1472684 n.841_846delGATCCG non_coding_transcript_exon_variant 0.12
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.11
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.11
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.11
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.11
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.11
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.11
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.13
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 0.17
inhA 1674498 c.297G>C synonymous_variant 0.92
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.17
Rv1979c 2223051 p.Glu38Asp missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.9
kasA 2518919 p.Gly269Ser missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
panD 4044308 c.-27A>T upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.96
whiB6 4338595 c.-75delG upstream_gene_variant 1.0