TB-Profiler result

Run: SRR5217421
Summary

Run ID: SRR5217421

Sample name:

Date: 24-01-2024 19:35:33

Number of reads: 38300968

Percentage reads mapped: 85.42

Strain: lineage2.2.1

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
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
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
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
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 1472106 n.261G>A non_coding_transcript_exon_variant 0.17
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.27
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.27
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.27
rrs 1472139 n.294C>T non_coding_transcript_exon_variant 0.3
rrs 1472146 n.301G>A non_coding_transcript_exon_variant 0.3
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.31
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.31
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.34
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.35
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.35
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.13
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.14
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.12
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.14
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.17
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.24
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.25
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.25
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.22
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.24
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.26
rrs 1472592 n.747C>T non_coding_transcript_exon_variant 0.24
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.27
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.24
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.22
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.24
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.23
rrs 1472719 n.874G>A non_coding_transcript_exon_variant 0.25
rrs 1472733 n.888G>T non_coding_transcript_exon_variant 0.29
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.31
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.31
rrs 1472742 n.897C>A non_coding_transcript_exon_variant 0.29
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.31
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.32
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.3
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.27
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.19
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.2
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.25
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.29
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.21
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.29
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.21
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.27
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.37
rrl 1476381 n.2724G>A non_coding_transcript_exon_variant 0.29
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.39
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.55
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.51
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.57
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.42
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.35
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.18
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834776 p.Ala412Val missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153952 c.2160C>T synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2221958 p.Glu403Lys 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
fbiB 3640879 c.-656C>T upstream_gene_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
ethA 4326474 p.Pro334Ala missense_variant 1.0
ethA 4328399 c.-926C>T upstream_gene_variant 1.0
whiB6 4338365 p.Cys53Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0