TB-Profiler result

Run: ERR4800111
Summary

Run ID: ERR4800111

Sample name:

Date: 01-04-2023 09:35:40

Number of reads: 2030781

Percentage reads mapped: 61.91

Strain: lineage3.1.2.1

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
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage3 East-African-Indian CAS RD750 0.99
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.2 East-African-Indian CAS;CAS2 RD750 0.98
lineage3.1.2.1 East-African-Indian CAS2 RD750 0.96
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 0.99
fgd1 491742 c.960T>C synonymous_variant 0.98
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 0.95
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775946 c.2535C>T synonymous_variant 0.98
mmpL5 776100 p.Thr794Ile missense_variant 0.99
mmpL5 777053 c.1428G>A synonymous_variant 0.95
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.17
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.24
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.45
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.42
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.39
rrs 1472669 n.824_825insTGGG non_coding_transcript_exon_variant 0.39
rrs 1472678 n.833T>G non_coding_transcript_exon_variant 0.37
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.37
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.37
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.36
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.37
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.35
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.34
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.28
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.2
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.16
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
fabG1 1673221 c.-219C>A upstream_gene_variant 0.98
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.94
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168604 p.Pro670Leu missense_variant 0.94
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.98
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 0.98
ribD 2986890 p.Ser18Arg missense_variant 0.96
thyA 3073693 p.Pro260Arg missense_variant 0.9
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0