TB-Profiler result

Run: ERR9117690
Summary

Run ID: ERR9117690

Sample name:

Date: 02-04-2023 09:28:35

Number of reads: 1795912

Percentage reads mapped: 96.26

Strain: lineage4.8

Drug-resistance: Other

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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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.5 streptomycin
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
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 0.57
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.57
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.5
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.4
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.4
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.29
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.33
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.4
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.43
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.43
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.33
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.43
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.43
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.43
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.43
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.4
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.15
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.17
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.5
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.4
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.5
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.38
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.38
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.44
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.44
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.44
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.44
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.55
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.64
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.64
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.45
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.98
PPE35 2168822 c.1791G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249364 p.Glu951Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0