TB-Profiler result

Run: ERR4814813
Summary

Run ID: ERR4814813

Sample name:

Date: 01-04-2023 13:30:14

Number of reads: 1775348

Percentage reads mapped: 97.92

Strain: lineage4.3.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.1 Euro-American (LAM) LAM9 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 7464 c.164delT frameshift_variant 0.14
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781802 c.243G>C synonymous_variant 0.12
rpsL 781814 c.255C>T synonymous_variant 0.13
rpsL 781817 c.258G>T synonymous_variant 0.12
rpsL 781832 c.273T>G synonymous_variant 0.12
rpsL 781835 c.276T>C synonymous_variant 0.12
rpsL 781856 c.297C>T synonymous_variant 0.14
rpsL 781859 c.300T>C synonymous_variant 0.13
rpsL 781868 c.309T>C synonymous_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.67
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 1.0
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.4
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.4
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.4
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.4
rrs 1472674 n.829T>C non_coding_transcript_exon_variant 0.4
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.4
rrs 1472681 n.836C>G non_coding_transcript_exon_variant 0.4
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.4
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.4
rrs 1472685 n.840G>A non_coding_transcript_exon_variant 0.4
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.67
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.67
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.8
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.8
rrs 1472791 n.946G>T non_coding_transcript_exon_variant 1.0
rrs 1472793 n.948A>C non_coding_transcript_exon_variant 1.0
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.67
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 1.0
rrl 1476113 n.2456T>G non_coding_transcript_exon_variant 1.0
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 1.0
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 1.0
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168412 p.Phe734Cys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039367 p.Lys446Asn missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328103 c.-630C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0