TB-Profiler result

Run: ERR2515522
Summary

Run ID: ERR2515522

Sample name:

Date: 31-03-2023 20:58:46

Number of reads: 475896

Percentage reads mapped: 99.69

Strain: lineage3.1.1

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 1.0
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.1 East-African-Indian CAS1-Kili RD750 0.99
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
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_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 776773 p.His570Asn missense_variant 0.11
mmpR5 779303 p.Arg105Pro missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303246 p.Thr106Ala missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476785 n.3128A>T non_coding_transcript_exon_variant 0.13
fabG1 1673702 c.266_268delCCG disruptive_inframe_deletion 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103061 c.-19C>A upstream_gene_variant 0.13
katG 2154150 c.1962C>A synonymous_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168961 p.Gly551Val missense_variant 0.11
PPE35 2170246 p.Ser123Pro missense_variant 0.11
PPE35 2170461 p.Gly51Glu missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2715526 c.-194C>T upstream_gene_variant 0.11
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747322 p.Thr93Ala missense_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640928 p.Thr129Ile missense_variant 0.11
fbiB 3641584 p.Val17Ala missense_variant 0.1
rpoA 3878357 p.Val51Ile missense_variant 0.14
embC 4240172 p.Val104Met missense_variant 1.0
embC 4240765 c.903C>T synonymous_variant 0.12
embC 4241562 p.Arg567His missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244691 p.Tyr487His missense_variant 0.11
embA 4246075 p.Leu948Arg missense_variant 0.15
embB 4249378 c.2865G>T synonymous_variant 0.13
aftB 4267744 p.Arg365Trp missense_variant 0.14
aftB 4267830 p.Gly336Asp missense_variant 0.17
ubiA 4269862 c.-29G>A upstream_gene_variant 0.13
ubiA 4269997 c.-164C>G upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0