TB-Profiler result

Run: SRR5818405

Summary

Run ID: SRR5818405

Sample name:

Date: 04-04-2023 11:21:36

Number of reads: 688056

Percentage reads mapped: 97.22

Strain: lineage4.9

Drug-resistance: Sensitive


Download CSV Download TXT Download PDF Download JSON
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
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 6454 c.-848C>T upstream_gene_variant 0.79
gyrA 6721 c.-581C>T upstream_gene_variant 0.8
gyrA 7585 p.Ser95Thr missense_variant 1.0
mmpL5 779283 c.-803G>A upstream_gene_variant 0.84
mmpL5 779295 c.-815A>G upstream_gene_variant 0.83
mmpR5 779431 p.Asn148Gln missense_variant 0.79
mmpL5 779472 c.-992G>A upstream_gene_variant 0.79
mmpS5 779523 c.-618T>A upstream_gene_variant 0.74
mmpS5 779538 c.-633A>C upstream_gene_variant 0.66
mmpS5 779539 c.-634C>A upstream_gene_variant 0.65
rplC 801267 c.459A>G synonymous_variant 0.77
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.83
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.84
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.8
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.25
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.26
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.18
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.46
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.47
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.51
inhA 1674816 c.615T>C synonymous_variant 0.68
tlyA 1917812 c.-128G>A upstream_gene_variant 0.6
tlyA 1917972 c.33A>G synonymous_variant 1.0
pncA 2289104 c.138A>G synonymous_variant 0.74
ahpC 2726184 c.-9A>C upstream_gene_variant 0.41
embB 4247590 c.1077A>G synonymous_variant 0.86
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247815 c.1302C>T synonymous_variant 0.88
ethA 4326463 c.1011C>T synonymous_variant 0.87
ethA 4326740 p.Arg245His missense_variant 0.86
ethA 4326764 p.Ala237Val missense_variant 0.26
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407742 p.Arg154Pro missense_variant 0.29
gid 4407873 c.330G>T synonymous_variant 0.28
gid 4408185 c.18C>T synonymous_variant 0.71