TB-Profiler result

Run: ERR4817310
Summary

Run ID: ERR4817310

Sample name:

Date: 01-04-2023 14:55:14

Number of reads: 2567

Percentage reads mapped: 2.7

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 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 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
rpoC 762929 c.-441G>C upstream_gene_variant 1.0
rpoC 763486 c.117T>C synonymous_variant 1.0
rpoC 763492 c.123G>C synonymous_variant 1.0
rpoC 763505 c.136C>T synonymous_variant 1.0
rpoC 763528 c.159G>T synonymous_variant 1.0
rpoC 763531 c.162G>C synonymous_variant 1.0
rpoC 763534 c.165T>C synonymous_variant 1.0
rpoC 763537 c.168C>G synonymous_variant 1.0
rpoC 763546 c.177A>G synonymous_variant 1.0
rpoC 763570 c.201G>C synonymous_variant 1.0
rpoC 763578 p.Phe70Tyr missense_variant 1.0
rpoC 763582 c.213G>A synonymous_variant 1.0
rpoC 763609 c.240C>G synonymous_variant 1.0
rpoC 764677 c.1308C>G synonymous_variant 1.0
rpoC 764706 p.Leu446Gln missense_variant 1.0
rpoC 764746 c.1377G>C synonymous_variant 1.0
rpoC 764758 c.1389C>G synonymous_variant 0.75
rpoC 764764 c.1395T>C synonymous_variant 0.75
rpoC 764767 c.1398G>T synonymous_variant 0.8
rpoC 764780 c.1411_1412delAGinsTC synonymous_variant 1.0
rpoC 764804 p.Gln479* stop_gained 0.67
rpoC 764812 c.1443C>G synonymous_variant 1.0
rpoC 764815 c.1446A>G synonymous_variant 1.0
rpsL 781751 c.192G>C synonymous_variant 1.0
rpsL 781754 c.195G>C synonymous_variant 1.0
rpsL 781760 c.201T>C synonymous_variant 1.0
rpsL 781793 c.234G>C synonymous_variant 1.0
rpsL 781796 p.Met79Ile missense_variant 1.0
rpsL 781802 c.243G>C synonymous_variant 1.0
rpsL 781811 c.252C>T synonymous_variant 1.0
rpsL 781814 c.255C>T synonymous_variant 1.0
rpsL 781817 c.258G>T synonymous_variant 1.0
rpsL 781829 c.270G>C synonymous_variant 1.0
rpsL 781832 c.273T>C synonymous_variant 1.0
rpsL 781838 c.279G>C synonymous_variant 1.0
rrs 1472106 n.261G>A 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 1472113 n.268T>C non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.33
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.6
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.29
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.4
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.29
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.5
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.29
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.75
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.5
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.44
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.3
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.36
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.36
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.5
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.4
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.67
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.75
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 1.0
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.75
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.75
rrs 1472970 n.1125C>T non_coding_transcript_exon_variant 0.33
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 1.0
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.33
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.75
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 1.0
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 1.0
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.67
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.67
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.67
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 1.0
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 1.0
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 1.0
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 1.0
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 1.0
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 1.0
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 1.0
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 1.0
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 1.0
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 1.0
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 1.0
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 1.0
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 1.0
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 1.0
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 1.0
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 1.0
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 1.0
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 1.0
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 1.0
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 1.0
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 1.0
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 1.0
rrl 1474633 n.977_981delTCACC non_coding_transcript_exon_variant 1.0
rrl 1474640 n.983_984insTTGCT non_coding_transcript_exon_variant 1.0
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 1.0
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 1.0
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.86
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 1.0