TB-Profiler result

Run: ERR2515191
Summary

Run ID: ERR2515191

Sample name:

Date: 20-10-2023 14:10:23

Number of reads: 1146743

Percentage reads mapped: 93.81

Strain: lineage2.2.1

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
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin R rrs n.888G>A (0.87)
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 1472733 n.888G>A non_coding_transcript_exon_variant 0.87 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.13
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.47
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.8
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.7
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.85
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.85
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.86
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.86
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.85
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.87
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.87
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.88
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.86
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.88
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.86
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.85
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.84
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.83
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.86
rrs 1472678 n.833_834delTTinsGCC non_coding_transcript_exon_variant 0.85
rrs 1472684 n.839_845delGGGATCCinsA non_coding_transcript_exon_variant 0.86
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.84
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.85
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.86
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.86
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.87
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.87
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.86
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.84
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.83
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.82
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.57
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.43
rrs 1472826 n.981G>A non_coding_transcript_exon_variant 0.44
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.45
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.46
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.43
rrs 1472837 n.992_993insTTTG non_coding_transcript_exon_variant 0.42
rrs 1472841 n.996_1002delGGACGCGinsAC non_coding_transcript_exon_variant 0.46
rrs 1472858 n.1013_1014insA non_coding_transcript_exon_variant 0.46
rrs 1472861 n.1016G>A non_coding_transcript_exon_variant 0.28
rrs 1472867 n.1022T>C non_coding_transcript_exon_variant 0.42
rrs 1472869 n.1024_1025delGTinsTCGGG non_coding_transcript_exon_variant 0.43
rrs 1472873 n.1028C>A non_coding_transcript_exon_variant 0.43
rrs 1472875 n.1030T>A non_coding_transcript_exon_variant 0.46
rrs 1472876 n.1031G>A non_coding_transcript_exon_variant 0.41
rrs 1472877 n.1032T>A non_coding_transcript_exon_variant 0.44
rrs 1472880 n.1035_1036insA non_coding_transcript_exon_variant 0.46
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.46
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.15
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.12
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 0.13
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.13
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.13
rrs 1473201 n.1356_1357delACinsT non_coding_transcript_exon_variant 0.12
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.14
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.14
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.11
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.17
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.14
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.13
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.15
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.19
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.26
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.28
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.22
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.17
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.12
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407620 p.Tyr195His missense_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0