TB-Profiler result

Run: ERR4821718
Summary

Run ID: ERR4821718

Sample name:

Date: 20-10-2023 09:42:41

Number of reads: 3168213

Percentage reads mapped: 95.23

Strain: lineage4.2.2.2

Drug-resistance: Sensitive

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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
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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.2 Euro-American (Ural) T;LAM7-TUR None 0.83
lineage4.2.2.2 Euro-American (Ural) T;LAM7-TUR 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8688 p.Ala463Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576077 c.730C>T synonymous_variant 1.0
rpoB 761489 c.1683G>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471923 n.78T>C non_coding_transcript_exon_variant 0.42
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.43
rrs 1471985 n.140T>C non_coding_transcript_exon_variant 0.39
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.39
rrs 1472069 n.224G>A non_coding_transcript_exon_variant 0.44
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.61
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.61
rrs 1472123 n.278A>G non_coding_transcript_exon_variant 0.71
rrs 1472138 n.293C>A non_coding_transcript_exon_variant 0.76
rrs 1472147 n.302G>T non_coding_transcript_exon_variant 0.8
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 0.8
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.8
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.84
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.77
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.83
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.77
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.77
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.77
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.79
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.86
rrs 1472504 n.659A>T non_coding_transcript_exon_variant 0.82
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.83
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.77
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.9
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.8
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.8
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.8
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.83
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.93
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.93
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.95
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.88
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.87
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.65
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.62
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.48
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.37
rrs 1473282 n.1437_1438delCTinsTCA non_coding_transcript_exon_variant 0.37
rrs 1473287 n.1442_1448delCCTCGGGinsTCGTTT non_coding_transcript_exon_variant 0.44
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.41
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.92
rrl 1474798 n.1141C>G non_coding_transcript_exon_variant 0.92
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.92
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 1.0
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 1.0
rrl 1474825 n.1168G>A non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 1.0
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.91
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.47
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.47
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.47
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.5
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.53
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.55
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.52
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.5
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.53
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.53
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.53
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.7
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168600 c.2013G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
ald 3086742 c.-78A>C 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
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0