TB-Profiler result

Run: ERR4817301
Summary

Run ID: ERR4817301

Sample name:

Date: 01-04-2023 14:54:56

Number of reads: 91472

Percentage reads mapped: 61.57

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 1.0
lineage4.9 Euro-American (H37Rv-like) T1 None 0.89
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 1473329 n.1484G>T non_coding_transcript_exon_variant 1.0 kanamycin, capreomycin, aminoglycosides, amikacin
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
rpoC 762926 c.-444C>G upstream_gene_variant 0.67
rpoC 762971 c.-399G>C upstream_gene_variant 1.0
rpoC 763570 c.201G>C synonymous_variant 0.67
rpoC 763573 c.204G>C synonymous_variant 0.67
rpoC 763594 c.225C>T synonymous_variant 0.5
rpoC 763622 p.Ala85Ser missense_variant 0.4
rpoC 763627 p.Lys86Asn missense_variant 0.4
rpoC 764605 c.1236G>C synonymous_variant 1.0
rpoC 764611 c.1242G>T synonymous_variant 1.0
rpoC 764635 c.1266C>G synonymous_variant 1.0
rpoC 764641 c.1272C>T synonymous_variant 1.0
rpoC 764650 c.1281G>C synonymous_variant 1.0
rpoC 764706 p.Leu446Gln missense_variant 1.0
rpoC 764758 c.1389C>G synonymous_variant 1.0
rpoC 764781 p.Ser471Thr missense_variant 0.67
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 1.0
rrs 1472107 n.262A>G non_coding_transcript_exon_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 1.0
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.4
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.4
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.4
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.5
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.6
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 1.0
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 1.0
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.57
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.67
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.8
rrs 1472279 n.434T>G non_coding_transcript_exon_variant 1.0
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 1.0
rrs 1472368 n.523A>G non_coding_transcript_exon_variant 1.0
rrs 1472396 n.551A>T non_coding_transcript_exon_variant 1.0
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 1.0
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 1.0
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.5
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.5
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 1.0
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.8
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.8
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.8
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.67
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.67
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.67
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.33
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.71
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 0.67
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.67
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.6
rrs 1472955 n.1110delC non_coding_transcript_exon_variant 0.67
rrs 1472958 n.1113_1114insC non_coding_transcript_exon_variant 0.33
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.5
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.5
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.67
rrs 1473022 n.1177G>A non_coding_transcript_exon_variant 0.67
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.71
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.6
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.75
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.6
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.75
rrs 1473317 n.1472G>A non_coding_transcript_exon_variant 0.75
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 1.0
rrl 1474275 n.618T>A non_coding_transcript_exon_variant 1.0
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 1.0
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 1.0
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 1.0
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 1.0
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 1.0
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 1.0
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 1.0
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 1.0
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 1.0
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 1.0
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 1.0
rrl 1474662 n.1005C>A non_coding_transcript_exon_variant 1.0
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.67
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 1.0
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.67
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.5
rrl 1476535 n.2878G>A non_coding_transcript_exon_variant 1.0
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 1.0
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 1.0
rpsA 1834093 c.552G>C synonymous_variant 0.67
rpsA 1834102 c.561T>C synonymous_variant 0.67
rpsA 1834114 c.573G>C synonymous_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4248639 p.Ile709Thr missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0