TB-Profiler result

Run: ERR1950000
Summary

Run ID: ERR1950000

Sample name:

Date: 18-08-2022 11:13:03

Number of reads: 983845

Percentage reads mapped: 99.34

Strain: lineage4.8

Drug-resistance: RR-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 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
rpoB 761101 p.Gln432Arg missense_variant 0.12 rifampicin
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
rpoC 766689 p.Val1107Gly missense_variant 0.23
rpoC 766701 p.Leu1111Gln missense_variant 0.3
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801136 p.Ser110Gly missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304996 p.Leu689Ser missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472538 n.693A>T non_coding_transcript_exon_variant 0.2
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.2
rrl 1473915 n.258A>C non_coding_transcript_exon_variant 0.25
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474020 n.363A>T non_coding_transcript_exon_variant 0.18
rrl 1474021 n.364A>T non_coding_transcript_exon_variant 0.27
rrl 1476562 n.2905C>G non_coding_transcript_exon_variant 0.2
fabG1 1673849 p.Phe137Ser missense_variant 0.1
inhA 1674344 p.Gln48Arg missense_variant 0.15
rpsA 1834518 p.Leu326Arg missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
pncA 2289761 c.-520A>C upstream_gene_variant 0.18
ahpC 2725935 c.-258G>T upstream_gene_variant 0.16
ahpC 2726536 p.Lys115Arg missense_variant 0.12
thyA 3074544 c.-73T>G upstream_gene_variant 0.17
thyA 3074645 c.-174T>G upstream_gene_variant 0.14
ald 3086659 c.-161A>T upstream_gene_variant 0.23
ald 3086987 p.Gln56His missense_variant 0.15
fbiA 3641186 p.Asn215Ile missense_variant 0.17
embC 4239793 c.-70A>C upstream_gene_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246893 p.Asp127Ala missense_variant 0.16
embB 4249287 p.Gln925Arg missense_variant 0.12
ethA 4327352 p.Met41Thr missense_variant 0.14