TB-Profiler result

Run: SRR15368762
Summary

Run ID: SRR15368762

Sample name:

Date: 03-04-2023 13:47:44

Number of reads: 81293

Percentage reads mapped: 2.14

Strain: lineage4.9

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 0.94
lineage4.9 Euro-American (H37Rv-like) T1 None 0.96
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.09
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
rpsL 781822 p.Lys88Arg missense_variant 1.0 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
gyrB 7206 p.Val656Ala missense_variant 0.67
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 766002 p.Val878Ala missense_variant 0.5
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 776996 c.1485C>A synonymous_variant 0.33
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781912 p.Gly118Val missense_variant 0.67
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471818 n.-28G>A upstream_gene_variant 0.67
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.5
rrl 1476332 n.2675G>T non_coding_transcript_exon_variant 0.67
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.67
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.75
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.5
rrl 1476368 n.2711T>A non_coding_transcript_exon_variant 0.75
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.75
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.75
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.5
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.75
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.6
rrl 1476420 n.2763G>A non_coding_transcript_exon_variant 0.6
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.6
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.6
rrl 1476433 n.2776C>T non_coding_transcript_exon_variant 0.6
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
Rv1979c 2222793 c.372C>T synonymous_variant 0.33
pepQ 2859919 p.Arg167Gln missense_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448550 p.Gly16Asp missense_variant 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
panD 4044320 c.-39C>T upstream_gene_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4245521 c.-993G>A upstream_gene_variant 0.4
aftB 4267133 c.1704C>T synonymous_variant 0.5
aftB 4267647 p.Asp397Gly missense_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0