TB-Profiler result

Run: SRR5818427
Summary

Run ID: SRR5818427

Sample name:

Date: 04-04-2023 11:27:51

Number of reads: 948435

Percentage reads mapped: 98.9

Strain: lineage4.9

Drug-resistance: HR-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
lineage4.9 Euro-American (H37Rv-like) T1 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
rrs 1472359 n.514A>C non_coding_transcript_exon_variant 0.89 streptomycin
katG 2155168 p.Ser315Thr missense_variant 0.96 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 7585 p.Ser95Thr missense_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.82
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.81
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.75
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.21
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.21
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.18
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.15
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.14
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.18
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.38
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.3
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.39
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.15
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.2
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.18
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.14
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.13
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.2
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ahpC 2726184 c.-9A>C upstream_gene_variant 0.44
embB 4247646 p.Glu378Ala missense_variant 1.0
ethA 4326764 p.Ala237Val missense_variant 0.25
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407873 c.330G>T synonymous_variant 0.98
gid 4407935 p.Leu90Val missense_variant 0.98
gid 4407944 p.Gln87Glu missense_variant 0.98