TB-Profiler result

Run: ERR2513137
Summary

Run ID: ERR2513137

Sample name:

Date: 31-03-2023 19:29:05

Number of reads: 872067

Percentage reads mapped: 99.33

Strain: lineage3

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 0.96
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
gyrB 6112 p.Met291Ile missense_variant 0.17
gyrB 6124 c.885C>T synonymous_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 0.88
gyrA 9777 p.Asn826Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620771 p.Trp294* stop_gained 0.18
rpoB 759746 c.-61C>T upstream_gene_variant 0.88
rpoB 762344 c.2542delT frameshift_variant 0.17
rpoC 762434 c.-936T>G upstream_gene_variant 0.95
rpoB 762636 p.Lys944Glu missense_variant 0.96
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764181 p.Asp271Gly missense_variant 0.83
rpoC 765667 c.2298C>T synonymous_variant 0.1
rpoC 765693 p.Val775Ala missense_variant 0.11
rpoC 766026 p.Val886Ala missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801301 p.Arg165Trp missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 1.0
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 1.0
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 1.0
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 1.0
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155518 p.Trp198Cys missense_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170387 c.226C>T synonymous_variant 0.11
PPE35 2170769 c.-157C>T upstream_gene_variant 0.97
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.91
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2714817 c.516C>T synonymous_variant 0.11
eis 2715432 c.-100C>T upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.33
folC 2746506 p.Thr365Ala missense_variant 0.12
folC 2747617 c.-19C>A upstream_gene_variant 0.11
pepQ 2859359 p.Thr354Ala missense_variant 0.97
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448578 c.75C>T synonymous_variant 0.12
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
embA 4244338 p.Leu369Pro missense_variant 0.11
embA 4244421 p.Glu397* stop_gained 0.11
aftB 4269606 c.-770T>C upstream_gene_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0