TB-Profiler result

Run: SRR5818443
Summary

Run ID: SRR5818443

Sample name:

Date: 04-04-2023 11:29:58

Number of reads: 75081

Percentage reads mapped: 40.53

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 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
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 0.57
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760851 p.Met349Val missense_variant 0.4
rpoB 761489 c.1683G>A synonymous_variant 1.0
mmpS5 779662 c.-757G>T upstream_gene_variant 0.67
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.12
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.12
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.13
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.25
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.18
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.12
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.14
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.2
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.21
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.16
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.23
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.17
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.21
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.19
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.2
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.22
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.27
fabG1 1673214 c.-226T>C upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154721 p.Ala464Val missense_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
fbiD 3338949 c.-168delC upstream_gene_variant 0.5
embA 4243703 c.471C>A synonymous_variant 1.0
ethA 4326764 p.Ala237Val missense_variant 0.23
whiB6 4338595 c.-75delG upstream_gene_variant 1.0